python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/Fis_HS_i5006_DY330_rep1_19786.PE.a.GPS/Fis_HS_i5006_DY330_rep1_19786.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-Fis_HS_i5006_DY330_rep1_19786.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/Fis_HS_i5006_DY330_rep2_20238.PE.a.GPS/Fis_HS_i5006_DY330_rep2_20238.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-Fis_HS_i5006_DY330_rep2_20238.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/Fis_MHS_i5006_DY330_rep1_19780.PE.a.GPS/Fis_MHS_i5006_DY330_rep1_19780.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-Fis_MHS_i5006_DY330_rep1_19780.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/Fis_MHS_i5006_DY330_rep1_20234.PE.a.GPS/Fis_MHS_i5006_DY330_rep1_20234.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-Fis_MHS_i5006_DY330_rep1_20234.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/HimD_HS_i5006_DY330_rep1_20227.PE.a.GPS/HimD_HS_i5006_DY330_rep1_20227.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-HimD_HS_i5006_DY330_rep1_20227.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/HimD_HS_i5006_DY330_rep2_20228.PE.a.GPS/HimD_HS_i5006_DY330_rep2_20228.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-HimD_HS_i5006_DY330_rep2_20228.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/HimD_HS_i5006_DY330_rep3_21327.PE.a.GPS/HimD_HS_i5006_DY330_rep3_21327.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-HimD_HS_i5006_DY330_rep3_21327.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/HimD_MHS_i5006_DY330_rep1_20219.PE.a.GPS/HimD_MHS_i5006_DY330_rep1_20219.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-HimD_MHS_i5006_DY330_rep1_20219.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/HimD_MHS_i5006_DY330_rep2_20220.PE.a.GPS/HimD_MHS_i5006_DY330_rep2_20220.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-HimD_MHS_i5006_DY330_rep2_20220.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/HimD_MHS_i5006_DY330_rep3_21320.PE.a.GPS/HimD_MHS_i5006_DY330_rep3_21320.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-HimD_MHS_i5006_DY330_rep3_21320.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/MglB_HS_i5006_DY330_rep1_17259.PE.a.GPS/MglB_HS_i5006_DY330_rep1_17259.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-MglB_HS_i5006_DY330_rep1_17259.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/MglB_HS_i5006_DY330_rep2_17274.PE.a.GPS/MglB_HS_i5006_DY330_rep2_17274.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-MglB_HS_i5006_DY330_rep2_17274.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/MglB_MHS_i5006_DY330_rep1_17251.PE.a.GPS/MglB_MHS_i5006_DY330_rep1_17251.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-MglB_MHS_i5006_DY330_rep1_17251.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/MglB_MHS_i5006_DY330_rep2_17267.PE.a.GPS/MglB_MHS_i5006_DY330_rep2_17267.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-MglB_MHS_i5006_DY330_rep2_17267.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoA_HS_i5006_DY330_rep1_19790.PE.a.GPS/RpoA_HS_i5006_DY330_rep1_19790.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoA_HS_i5006_DY330_rep1_19790.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoA_HS_i5006_DY330_rep2_20240.PE.a.GPS/RpoA_HS_i5006_DY330_rep2_20240.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoA_HS_i5006_DY330_rep2_20240.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoA_HS_i5006_DY330_rep3_21307.PE.a.GPS/RpoA_HS_i5006_DY330_rep3_21307.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoA_HS_i5006_DY330_rep3_21307.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoA_MHS_i5006_DY330_rep1_19784.PE.a.GPS/RpoA_MHS_i5006_DY330_rep1_19784.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoA_MHS_i5006_DY330_rep1_19784.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoA_MHS_i5006_DY330_rep2_20236.PE.a.GPS/RpoA_MHS_i5006_DY330_rep2_20236.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoA_MHS_i5006_DY330_rep2_20236.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoA_MHS_i5006_DY330_rep3_21299.PE.a.GPS/RpoA_MHS_i5006_DY330_rep3_21299.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoA_MHS_i5006_DY330_rep3_21299.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoB_HS_i5006_DY330_rep1_17260.PE.a.GPS/RpoB_HS_i5006_DY330_rep1_17260.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoB_HS_i5006_DY330_rep1_17260.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoB_HS_i5006_DY330_rep2_17275.PE.a.GPS/RpoB_HS_i5006_DY330_rep2_17275.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoB_HS_i5006_DY330_rep2_17275.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoB_HS_i5006_DY330_rep3_21322.PE.a.GPS/RpoB_HS_i5006_DY330_rep3_21322.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoB_HS_i5006_DY330_rep3_21322.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoB_MHS_i5006_DY330_rep1_17252.PE.a.GPS/RpoB_MHS_i5006_DY330_rep1_17252.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoB_MHS_i5006_DY330_rep1_17252.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoB_MHS_i5006_DY330_rep2_17268.PE.a.GPS/RpoB_MHS_i5006_DY330_rep2_17268.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoB_MHS_i5006_DY330_rep2_17268.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoB_MHS_i5006_DY330_rep3_21315.PE.a.GPS/RpoB_MHS_i5006_DY330_rep3_21315.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoB_MHS_i5006_DY330_rep3_21315.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoC_HS_i5006_DY330_rep1_20231.PE.a.GPS/RpoC_HS_i5006_DY330_rep1_20231.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoC_HS_i5006_DY330_rep1_20231.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoC_HS_i5006_DY330_rep2_20232.PE.a.GPS/RpoC_HS_i5006_DY330_rep2_20232.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoC_HS_i5006_DY330_rep2_20232.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoC_HS_i5006_DY330_rep3_21323.PE.a.GPS/RpoC_HS_i5006_DY330_rep3_21323.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoC_HS_i5006_DY330_rep3_21323.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoC_HS_i5006_DY330_rep4_21324.PE.a.GPS/RpoC_HS_i5006_DY330_rep4_21324.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoC_HS_i5006_DY330_rep4_21324.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoC_MHS_i5006_DY330_rep1_20223.PE.a.GPS/RpoC_MHS_i5006_DY330_rep1_20223.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoC_MHS_i5006_DY330_rep1_20223.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoC_MHS_i5006_DY330_rep2_20224.PE.a.GPS/RpoC_MHS_i5006_DY330_rep2_20224.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoC_MHS_i5006_DY330_rep2_20224.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoC_MHS_i5006_DY330_rep3_21316.PE.a.GPS/RpoC_MHS_i5006_DY330_rep3_21316.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoC_MHS_i5006_DY330_rep3_21316.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoC_MHS_i5006_DY330_rep4_21317.PE.a.GPS/RpoC_MHS_i5006_DY330_rep4_21317.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoC_MHS_i5006_DY330_rep4_21317.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoD_HS_i5006_DY330_rep1_17261.PE.a.GPS/RpoD_HS_i5006_DY330_rep1_17261.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoD_HS_i5006_DY330_rep1_17261.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoD_HS_i5006_DY330_rep2_17276.PE.a.GPS/RpoD_HS_i5006_DY330_rep2_17276.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoD_HS_i5006_DY330_rep2_17276.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoD_MHS_i5006_DY330_rep1_17253.PE.a.GPS/RpoD_MHS_i5006_DY330_rep1_17253.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoD_MHS_i5006_DY330_rep1_17253.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoD_MHS_i5006_DY330_rep2_17269.PE.a.GPS/RpoD_MHS_i5006_DY330_rep2_17269.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoD_MHS_i5006_DY330_rep2_17269.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoH_HS_i5006_DY330_rep1_17265.PE.a.GPS/RpoH_HS_i5006_DY330_rep1_17265.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoH_HS_i5006_DY330_rep1_17265.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoH_HS_i5006_DY330_rep2_17280.PE.a.GPS/RpoH_HS_i5006_DY330_rep2_17280.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoH_HS_i5006_DY330_rep2_17280.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoH_HS_i5006_DY330_rep3_21313.PE.a.GPS/RpoH_HS_i5006_DY330_rep3_21313.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoH_HS_i5006_DY330_rep3_21313.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoH_HS_i5006_DY330_rep4_21314.PE.a.GPS/RpoH_HS_i5006_DY330_rep4_21314.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoH_HS_i5006_DY330_rep4_21314.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoH_MHS_i5006_DY330_rep1_17257.PE.a.GPS/RpoH_MHS_i5006_DY330_rep1_17257.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoH_MHS_i5006_DY330_rep1_17257.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoH_MHS_i5006_DY330_rep2_17273.PE.a.GPS/RpoH_MHS_i5006_DY330_rep2_17273.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoH_MHS_i5006_DY330_rep2_17273.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoH_MHS_i5006_DY330_rep3_21305.PE.a.GPS/RpoH_MHS_i5006_DY330_rep3_21305.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoH_MHS_i5006_DY330_rep3_21305.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoH_MHS_i5006_DY330_rep4_21306.PE.a.GPS/RpoH_MHS_i5006_DY330_rep4_21306.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoH_MHS_i5006_DY330_rep4_21306.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoN_HS_i5006_DY330_rep1_20229.PE.a.GPS/RpoN_HS_i5006_DY330_rep1_20229.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoN_HS_i5006_DY330_rep1_20229.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoN_HS_i5006_DY330_rep2_20230.PE.a.GPS/RpoN_HS_i5006_DY330_rep2_20230.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoN_HS_i5006_DY330_rep2_20230.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoN_MHS_i5006_DY330_rep1_20221.PE.a.GPS/RpoN_MHS_i5006_DY330_rep1_20221.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoN_MHS_i5006_DY330_rep1_20221.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206/RpoN_MHS_i5006_DY330_rep2_20222.PE.a.GPS/RpoN_MHS_i5006_DY330_rep2_20222.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-01-E.coli-MglB-Fis-HimD-Rpo_s-GSE189206-RpoN_MHS_i5006_DY330_rep2_20222.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 02-E.coli-RpoB-RpoD-GSE182128/RpoB_1.SE.a.GPS/RpoB_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-02-E.coli-RpoB-RpoD-GSE182128-RpoB_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 02-E.coli-RpoB-RpoD-GSE182128/RpoB_2.SE.a.GPS/RpoB_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-02-E.coli-RpoB-RpoD-GSE182128-RpoB_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 02-E.coli-RpoB-RpoD-GSE182128/RpoD_1.SE.a.GPS/RpoD_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-02-E.coli-RpoB-RpoD-GSE182128-RpoD_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 02-E.coli-RpoB-RpoD-GSE182128/RpoD_2.SE.a.GPS/RpoD_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-02-E.coli-RpoB-RpoD-GSE182128-RpoD_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 03-E.coli-Fur-RpoB-GSE54899/Fur_with_DPD_1.SE.a.GPS/Fur_with_DPD_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-03-E.coli-Fur-RpoB-GSE54899-Fur_with_DPD_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 03-E.coli-Fur-RpoB-GSE54899/Fur_with_DPD_2.SE.a.GPS/Fur_with_DPD_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-03-E.coli-Fur-RpoB-GSE54899-Fur_with_DPD_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 03-E.coli-Fur-RpoB-GSE54899/Fur_with_Fe_1.SE.a.GPS/Fur_with_Fe_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-03-E.coli-Fur-RpoB-GSE54899-Fur_with_Fe_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 03-E.coli-Fur-RpoB-GSE54899/Fur_with_Fe_2.SE.a.GPS/Fur_with_Fe_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-03-E.coli-Fur-RpoB-GSE54899-Fur_with_Fe_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 03-E.coli-Fur-RpoB-GSE54899/RpoB_with_DPD_1.SE.a.GPS/RpoB_with_DPD_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-03-E.coli-Fur-RpoB-GSE54899-RpoB_with_DPD_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 03-E.coli-Fur-RpoB-GSE54899/RpoB_with_DPD_2.SE.a.GPS/RpoB_with_DPD_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-03-E.coli-Fur-RpoB-GSE54899-RpoB_with_DPD_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 03-E.coli-Fur-RpoB-GSE54899/RpoB_with_DPD_and_rifampicin_1.SE.a.GPS/RpoB_with_DPD_and_rifampicin_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-03-E.coli-Fur-RpoB-GSE54899-RpoB_with_DPD_and_rifampicin_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 03-E.coli-Fur-RpoB-GSE54899/RpoB_with_DPD_and_rifampicin_2.SE.a.GPS/RpoB_with_DPD_and_rifampicin_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-03-E.coli-Fur-RpoB-GSE54899-RpoB_with_DPD_and_rifampicin_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 03-E.coli-Fur-RpoB-GSE54899/RpoB_with_Fe_1.SE.a.GPS/RpoB_with_Fe_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-03-E.coli-Fur-RpoB-GSE54899-RpoB_with_Fe_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 03-E.coli-Fur-RpoB-GSE54899/RpoB_with_Fe_2.SE.a.GPS/RpoB_with_Fe_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-03-E.coli-Fur-RpoB-GSE54899-RpoB_with_Fe_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 03-E.coli-Fur-RpoB-GSE54899/RpoB_with_Fe_and_rifampicin_1.SE.a.GPS/RpoB_with_Fe_and_rifampicin_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-03-E.coli-Fur-RpoB-GSE54899-RpoB_with_Fe_and_rifampicin_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 03-E.coli-Fur-RpoB-GSE54899/RpoB_with_Fe_and_rifampicin_2.SE.a.GPS/RpoB_with_Fe_and_rifampicin_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-03-E.coli-Fur-RpoB-GSE54899-RpoB_with_Fe_and_rifampicin_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 04-E.coli-ArgR-GSE60546/ArgR_arg_rep1.SE.a.GPS/ArgR_arg_rep1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-04-E.coli-ArgR-GSE60546-ArgR_arg_rep1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 04-E.coli-ArgR-GSE60546/ArgR_arg_rep2.SE.a.GPS/ArgR_arg_rep2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-04-E.coli-ArgR-GSE60546-ArgR_arg_rep2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 05-E.coli-GadEWX-GSE66441/ChIP-exo_GadE_pH5.5_1.SE.a.GPS/ChIP-exo_GadE_pH5.5_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-05-E.coli-GadEWX-GSE66441-ChIP-exo_GadE_pH5.5_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 05-E.coli-GadEWX-GSE66441/ChIP-exo_GadE_pH5.5_2.SE.a.GPS/ChIP-exo_GadE_pH5.5_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-05-E.coli-GadEWX-GSE66441-ChIP-exo_GadE_pH5.5_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 05-E.coli-GadEWX-GSE66441/ChIP-exo_GadW_pH5.5_1.SE.a.GPS/ChIP-exo_GadW_pH5.5_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-05-E.coli-GadEWX-GSE66441-ChIP-exo_GadW_pH5.5_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 05-E.coli-GadEWX-GSE66441/ChIP-exo_GadW_pH5.5_2.SE.a.GPS/ChIP-exo_GadW_pH5.5_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-05-E.coli-GadEWX-GSE66441-ChIP-exo_GadW_pH5.5_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 05-E.coli-GadEWX-GSE66441/ChIP-exo_GadX_pH5.5_1.SE.a.GPS/ChIP-exo_GadX_pH5.5_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-05-E.coli-GadEWX-GSE66441-ChIP-exo_GadX_pH5.5_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 05-E.coli-GadEWX-GSE66441/ChIP-exo_GadX_pH5.5_2.SE.a.GPS/ChIP-exo_GadX_pH5.5_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-05-E.coli-GadEWX-GSE66441-ChIP-exo_GadX_pH5.5_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 05-E.coli-GadEWX-GSE66441/ChIP-exo_RpoS_pH5.5_1.SE.a.GPS/ChIP-exo_RpoS_pH5.5_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-05-E.coli-GadEWX-GSE66441-ChIP-exo_RpoS_pH5.5_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 05-E.coli-GadEWX-GSE66441/ChIP-exo_RpoS_pH5.5_2.SE.a.GPS/ChIP-exo_RpoS_pH5.5_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-05-E.coli-GadEWX-GSE66441-ChIP-exo_RpoS_pH5.5_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 06-E.coli-UvrY-GSE74810/UvrY-ChIP-exo.SE.a.GPS/UvrY-ChIP-exo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-06-E.coli-UvrY-GSE74810-UvrY-ChIP-exo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-ArcA_ArcA8myc_glucose_NH4Cl_anaerobic_1_anti-myc.SE.a.GPS/ChIPExo-ArcA_ArcA8myc_glucose_NH4Cl_anaerobic_1_anti-myc.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-ArcA_ArcA8myc_glucose_NH4Cl_anaerobic_1_anti-myc.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-ArcA_ArcA8myc_glucose_NH4Cl_anaerobic_2_anti-myc.SE.a.GPS/ChIPExo-ArcA_ArcA8myc_glucose_NH4Cl_anaerobic_2_anti-myc.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-ArcA_ArcA8myc_glucose_NH4Cl_anaerobic_2_anti-myc.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-ArcA_ArcA8myc_glucose_NH4Cl_anaerobic_3_anti-myc.SE.a.GPS/ChIPExo-ArcA_ArcA8myc_glucose_NH4Cl_anaerobic_3_anti-myc.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-ArcA_ArcA8myc_glucose_NH4Cl_anaerobic_3_anti-myc.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_delAr1delAr2_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS/ChIPExo-Crp_delAr1delAr2_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_delAr1delAr2_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_delAr1delAr2_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS/ChIPExo-Crp_delAr1delAr2_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_delAr1delAr2_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_delAr1delAr2_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS/ChIPExo-Crp_delAr1delAr2_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_delAr1delAr2_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_delAr1_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS/ChIPExo-Crp_delAr1_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_delAr1_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_delAr1_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS/ChIPExo-Crp_delAr1_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_delAr1_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_delAr1_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS/ChIPExo-Crp_delAr1_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_delAr1_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_delAr2_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS/ChIPExo-Crp_delAr2_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_delAr2_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_delAr2_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS/ChIPExo-Crp_delAr2_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_delAr2_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_delAr2_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS/ChIPExo-Crp_delAr2_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_delAr2_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_delta-crp_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS/ChIPExo-Crp_delta-crp_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_delta-crp_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_delta-crp_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS/ChIPExo-Crp_delta-crp_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_delta-crp_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_delta-crp_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS/ChIPExo-Crp_delta-crp_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_delta-crp_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_fructose_NH4Cl_O2_1_anti-crp.SE.a.GPS/ChIPExo-Crp_wt_fructose_NH4Cl_O2_1_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_fructose_NH4Cl_O2_1_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_fructose_NH4Cl_O2_2_anti-crp.SE.a.GPS/ChIPExo-Crp_wt_fructose_NH4Cl_O2_2_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_fructose_NH4Cl_O2_2_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_fructose_NH4Cl_O2_3_anti-crp.SE.a.GPS/ChIPExo-Crp_wt_fructose_NH4Cl_O2_3_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_fructose_NH4Cl_O2_3_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_fructose_NH4Cl_O2_4_anti-crp.SE.a.GPS/ChIPExo-Crp_wt_fructose_NH4Cl_O2_4_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_fructose_NH4Cl_O2_4_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_fructose_NH4Cl_O2_5_anti-crp.SE.a.GPS/ChIPExo-Crp_wt_fructose_NH4Cl_O2_5_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_fructose_NH4Cl_O2_5_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_glucose_NH4Cl_O2_1_anti-crp.SE.a.GPS/ChIPExo-Crp_wt_glucose_NH4Cl_O2_1_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_glucose_NH4Cl_O2_1_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_glucose_NH4Cl_O2_2_anti-crp.SE.a.GPS/ChIPExo-Crp_wt_glucose_NH4Cl_O2_2_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_glucose_NH4Cl_O2_2_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_1_anti-crp_rif.SE.a.GPS/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_1_anti-crp_rif.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_glycerol_NH4Cl_O2_1_anti-crp_rif.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_glycerol_NH4Cl_O2_1_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_2_anti-crp_rif.SE.a.GPS/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_2_anti-crp_rif.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_glycerol_NH4Cl_O2_2_anti-crp_rif.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_glycerol_NH4Cl_O2_2_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_3_anti-crp_rif.SE.a.GPS/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_3_anti-crp_rif.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_glycerol_NH4Cl_O2_3_anti-crp_rif.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_glycerol_NH4Cl_O2_3_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_4_anti-crp.SE.a.GPS/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_4_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_glycerol_NH4Cl_O2_4_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_5_anti-crp.SE.a.GPS/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_5_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_glycerol_NH4Cl_O2_5_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_6_anti-crp.SE.a.GPS/ChIPExo-Crp_wt_glycerol_NH4Cl_O2_6_anti-crp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Crp_wt_glycerol_NH4Cl_O2_6_anti-crp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Fnr_Fnr8myc_glucose_NH4Cl_anaerobic_1_anti-myc.SE.a.GPS/ChIPExo-Fnr_Fnr8myc_glucose_NH4Cl_anaerobic_1_anti-myc.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Fnr_Fnr8myc_glucose_NH4Cl_anaerobic_1_anti-myc.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Fnr_Fnr8myc_glucose_NH4Cl_anaerobic_2_anti-myc.SE.a.GPS/ChIPExo-Fnr_Fnr8myc_glucose_NH4Cl_anaerobic_2_anti-myc.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Fnr_Fnr8myc_glucose_NH4Cl_anaerobic_2_anti-myc.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-Fnr_Fnr8myc_glucose_NH4Cl_anaerobic_3_anti-myc.SE.a.GPS/ChIPExo-Fnr_Fnr8myc_glucose_NH4Cl_anaerobic_3_anti-myc.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-Fnr_Fnr8myc_glucose_NH4Cl_anaerobic_3_anti-myc.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-RpoD_wt_fructose_NH4Cl_O2_1_anti-rpod.SE.a.GPS/ChIPExo-RpoD_wt_fructose_NH4Cl_O2_1_anti-rpod.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-RpoD_wt_fructose_NH4Cl_O2_1_anti-rpod.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-RpoD_wt_fructose_NH4Cl_O2_2_anti-rpod.SE.a.GPS/ChIPExo-RpoD_wt_fructose_NH4Cl_O2_2_anti-rpod.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-RpoD_wt_fructose_NH4Cl_O2_2_anti-rpod.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-RpoD_wt_fructose_NH4Cl_O2_3_anti-rpod.SE.a.GPS/ChIPExo-RpoD_wt_fructose_NH4Cl_O2_3_anti-rpod.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-RpoD_wt_fructose_NH4Cl_O2_3_anti-rpod.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-RpoD_wt_glucose_NH4Cl_O2_1_anti-rpod.SE.a.GPS/ChIPExo-RpoD_wt_glucose_NH4Cl_O2_1_anti-rpod.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-RpoD_wt_glucose_NH4Cl_O2_1_anti-rpod.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-RpoD_wt_glucose_NH4Cl_O2_2_anti-rpod.SE.a.GPS/ChIPExo-RpoD_wt_glucose_NH4Cl_O2_2_anti-rpod.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-RpoD_wt_glucose_NH4Cl_O2_2_anti-rpod.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-RpoD_wt_glucose_NH4Cl_O2_3_anti-rpod.SE.a.GPS/ChIPExo-RpoD_wt_glucose_NH4Cl_O2_3_anti-rpod.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-RpoD_wt_glucose_NH4Cl_O2_3_anti-rpod.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-RpoD_wt_glycerol_NH4Cl_O2_1_anti-rpod.SE.a.GPS/ChIPExo-RpoD_wt_glycerol_NH4Cl_O2_1_anti-rpod.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-RpoD_wt_glycerol_NH4Cl_O2_1_anti-rpod.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-RpoD_wt_glycerol_NH4Cl_O2_2_anti-rpod.SE.a.GPS/ChIPExo-RpoD_wt_glycerol_NH4Cl_O2_2_anti-rpod.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-RpoD_wt_glycerol_NH4Cl_O2_2_anti-rpod.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 07-E.coli-Crp-GSE64847/ChIPExo-RpoD_wt_glycerol_NH4Cl_O2_3_anti-rpod.SE.a.GPS/ChIPExo-RpoD_wt_glycerol_NH4Cl_O2_3_anti-rpod.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-07-E.coli-Crp-GSE64847-ChIPExo-RpoD_wt_glycerol_NH4Cl_O2_3_anti-rpod.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 08-E.coli-Sig70-GSE84830/Sig70_exponential_aerobic_growth_no_rifampicin_applied_replicate_1-2.SE.a.GPS/Sig70_exponential_aerobic_growth_no_rifampicin_applied_replicate_1-2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-08-E.coli-Sig70-GSE84830-Sig70_exponential_aerobic_growth_no_rifampicin_applied_replicate_1-2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 08-E.coli-Sig70-GSE84830/Sig70_exponential_aerobic_growth_no_rifampicin_applied_replicate_1.SE.a.GPS/Sig70_exponential_aerobic_growth_no_rifampicin_applied_replicate_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-08-E.coli-Sig70-GSE84830-Sig70_exponential_aerobic_growth_no_rifampicin_applied_replicate_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 08-E.coli-Sig70-GSE84830/Sig70_exponential_aerobic_growth_no_rifampicin_applied_replicate_2-2.SE.a.GPS/Sig70_exponential_aerobic_growth_no_rifampicin_applied_replicate_2-2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-08-E.coli-Sig70-GSE84830-Sig70_exponential_aerobic_growth_no_rifampicin_applied_replicate_2-2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 08-E.coli-Sig70-GSE84830/Sig70_exponential_aerobic_growth_no_rifampicin_applied_replicate_2.SE.a.GPS/Sig70_exponential_aerobic_growth_no_rifampicin_applied_replicate_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-08-E.coli-Sig70-GSE84830-Sig70_exponential_aerobic_growth_no_rifampicin_applied_replicate_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 08-E.coli-Sig70-GSE84830/Sig70_exponential_aerobic_growth_rifampicin_applied_for_20_minutes_replicate_1.SE.a.GPS/Sig70_exponential_aerobic_growth_rifampicin_applied_for_20_minutes_replicate_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-08-E.coli-Sig70-GSE84830-Sig70_exponential_aerobic_growth_rifampicin_applied_for_20_minutes_replicate_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 08-E.coli-Sig70-GSE84830/Sig70_exponential_aerobic_growth_rifampicin_applied_for_20_minutes_replicate_2.SE.a.GPS/Sig70_exponential_aerobic_growth_rifampicin_applied_for_20_minutes_replicate_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-08-E.coli-Sig70-GSE84830-Sig70_exponential_aerobic_growth_rifampicin_applied_for_20_minutes_replicate_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 08-E.coli-Sig70-GSE84830/Sig70_static_aerobic_growth_no_rifampicin_applied_replicate_1.SE.a.GPS/Sig70_static_aerobic_growth_no_rifampicin_applied_replicate_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-08-E.coli-Sig70-GSE84830-Sig70_static_aerobic_growth_no_rifampicin_applied_replicate_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 08-E.coli-Sig70-GSE84830/Sig70_static_aerobic_growth_no_rifampicin_applied_replicate_2.SE.a.GPS/Sig70_static_aerobic_growth_no_rifampicin_applied_replicate_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-08-E.coli-Sig70-GSE84830-Sig70_static_aerobic_growth_no_rifampicin_applied_replicate_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 09-E.coli-OmpR-GSE88979/OmpR_NaCl_1.SE.a.GPS/OmpR_NaCl_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-09-E.coli-OmpR-GSE88979-OmpR_NaCl_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 09-E.coli-OmpR-GSE88979/OmpR_NaCl_2.SE.a.GPS/OmpR_NaCl_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-09-E.coli-OmpR-GSE88979-OmpR_NaCl_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 10-E.coli-Cra-RpoB-GSE65641/Cra_acetate_1.SE.a.GPS/Cra_acetate_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-10-E.coli-Cra-RpoB-GSE65641-Cra_acetate_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 10-E.coli-Cra-RpoB-GSE65641/Cra_acetate_2.SE.a.GPS/Cra_acetate_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-10-E.coli-Cra-RpoB-GSE65641-Cra_acetate_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 10-E.coli-Cra-RpoB-GSE65641/Cra_fructose_1.SE.a.GPS/Cra_fructose_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-10-E.coli-Cra-RpoB-GSE65641-Cra_fructose_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 10-E.coli-Cra-RpoB-GSE65641/Cra_fructose_2.SE.a.GPS/Cra_fructose_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-10-E.coli-Cra-RpoB-GSE65641-Cra_fructose_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 10-E.coli-Cra-RpoB-GSE65641/Cra_glucose_1.SE.a.GPS/Cra_glucose_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-10-E.coli-Cra-RpoB-GSE65641-Cra_glucose_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 10-E.coli-Cra-RpoB-GSE65641/Cra_glucose_2.SE.a.GPS/Cra_glucose_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-10-E.coli-Cra-RpoB-GSE65641-Cra_glucose_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 10-E.coli-Cra-RpoB-GSE65641/RpoB_del_cra_1.SE.a.GPS/RpoB_del_cra_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-10-E.coli-Cra-RpoB-GSE65641-RpoB_del_cra_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 10-E.coli-Cra-RpoB-GSE65641/RpoB_del_cra_2.SE.a.GPS/RpoB_del_cra_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-10-E.coli-Cra-RpoB-GSE65641-RpoB_del_cra_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 10-E.coli-Cra-RpoB-GSE65641/RpoB_del_crp_1.SE.a.GPS/RpoB_del_crp_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-10-E.coli-Cra-RpoB-GSE65641-RpoB_del_crp_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 10-E.coli-Cra-RpoB-GSE65641/RpoB_del_crp_2.SE.a.GPS/RpoB_del_crp_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-10-E.coli-Cra-RpoB-GSE65641-RpoB_del_crp_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 10-E.coli-Cra-RpoB-GSE65641/RpoB_WT_1.SE.a.GPS/RpoB_WT_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-10-E.coli-Cra-RpoB-GSE65641-RpoB_WT_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 10-E.coli-Cra-RpoB-GSE65641/RpoB_WT_2.SE.a.GPS/RpoB_WT_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-10-E.coli-Cra-RpoB-GSE65641-RpoB_WT_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/RpoB_glc1_ChIPexo.SE.a.GPS/RpoB_glc1_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-RpoB_glc1_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/RpoB_glc2_ChIPexo.SE.a.GPS/RpoB_glc2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-RpoB_glc2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YafC_glc1_ChIPexo.SE.a.GPS/YafC_glc1_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YafC_glc1_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YafC_glc2_ChIPexo.SE.a.GPS/YafC_glc2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YafC_glc2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YbaO_glc1_ChIPexo.SE.a.GPS/YbaO_glc1_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YbaO_glc1_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YbaO_glc2_ChIPexo.SE.a.GPS/YbaO_glc2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YbaO_glc2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YbaQ_glc1_ChIPexo.SE.a.GPS/YbaQ_glc1_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YbaQ_glc1_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YbaQ_glc2_ChIPexo.SE.a.GPS/YbaQ_glc2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YbaQ_glc2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YbiH_glc1_ChIPexo.SE.a.GPS/YbiH_glc1_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YbiH_glc1_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/Ybih_glc2_ChIPexo.SE.a.GPS/Ybih_glc2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-Ybih_glc2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YdcI_ace1_ChIPexp.SE.a.GPS/YdcI_ace1_ChIPexp.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YdcI_ace1_ChIPexp.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YdcI_ace2_ChIPexo.SE.a.GPS/YdcI_ace2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YdcI_ace2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YdcI_glc1_ChIPexo.SE.a.GPS/YdcI_glc1_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YdcI_glc1_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YdcI_glc2_ChIPexo.SE.a.GPS/YdcI_glc2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YdcI_glc2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YdcI_ph5_1_ChIPexo.SE.a.GPS/YdcI_ph5_1_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YdcI_ph5_1_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YdcI_ph5_2_ChIPexo.SE.a.GPS/YdcI_ph5_2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YdcI_ph5_2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YdcI_ph8_1_ChIPexo.SE.a.GPS/YdcI_ph8_1_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YdcI_ph8_1_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YdcI_ph8_2_ChIPexo.SE.a.GPS/YdcI_ph8_2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YdcI_ph8_2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YddM_glc1_ChIPexo.SE.a.GPS/YddM_glc1_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YddM_glc1_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YddM_glc2_ChIPexo.SE.a.GPS/YddM_glc2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YddM_glc2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YeiE_glc1_ChIPexo.SE.a.GPS/YeiE_glc1_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YeiE_glc1_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YeiE_glc2_ChIPexo.SE.a.GPS/YeiE_glc2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YeiE_glc2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YheO_glc1_ChIPexo.SE.a.GPS/YheO_glc1_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YheO_glc1_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YheO_glc2_ChIPexo.SE.a.GPS/YheO_glc2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YheO_glc2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YiaJ_glc1_ChIPexo.SE.a.GPS/YiaJ_glc1_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YiaJ_glc1_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YiaJ_glc2_ChIPexo.SE.a.GPS/YiaJ_glc2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YiaJ_glc2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YieP_glc1_ChIPexo.SE.a.GPS/YieP_glc1_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YieP_glc1_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095/YieP_glc2_ChIPexo.SE.a.GPS/YieP_glc2_ChIPexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-11-E.coli-Yaf-Yba-Ybi-Ydd-Yhe-Yia-Yie-RpoB-GSE111095-YieP_glc2_ChIPexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 12-E.coli-cysB-metJ-GSE122320/cysB_taur_1_ChIPexo.PE.a.GPS/cysB_taur_1_ChIPexo.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-12-E.coli-cysB-metJ-GSE122320-cysB_taur_1_ChIPexo.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 12-E.coli-cysB-metJ-GSE122320/cysB_taur_2_ChIPexo.PE.a.GPS/cysB_taur_2_ChIPexo.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-12-E.coli-cysB-metJ-GSE122320-cysB_taur_2_ChIPexo.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 12-E.coli-cysB-metJ-GSE122320/metJ_meio_1_ChIPexo.PE.a.GPS/metJ_meio_1_ChIPexo.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-12-E.coli-cysB-metJ-GSE122320-metJ_meio_1_ChIPexo.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 12-E.coli-cysB-metJ-GSE122320/metJ_meio_2_ChIPexo.PE.a.GPS/metJ_meio_2_ChIPexo.PE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-12-E.coli-cysB-metJ-GSE122320-metJ_meio_2_ChIPexo.PE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 13-E.coli-SigH-GSE60667/RNAP_beta_42C_rep1.SE.a.GPS/RNAP_beta_42C_rep1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-13-E.coli-SigH-GSE60667-RNAP_beta_42C_rep1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 13-E.coli-SigH-GSE60667/RNAP_beta_42C_rep2.SE.a.GPS/RNAP_beta_42C_rep2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-13-E.coli-SigH-GSE60667-RNAP_beta_42C_rep2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 13-E.coli-SigH-GSE60667/SigH_30C_rep1.SE.a.GPS/SigH_30C_rep1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-13-E.coli-SigH-GSE60667-SigH_30C_rep1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 13-E.coli-SigH-GSE60667/SigH_30C_rep2.SE.a.GPS/SigH_30C_rep2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-13-E.coli-SigH-GSE60667-SigH_30C_rep2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 13-E.coli-SigH-GSE60667/SigH_42C_rep1.SE.a.GPS/SigH_42C_rep1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-13-E.coli-SigH-GSE60667-SigH_42C_rep1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 13-E.coli-SigH-GSE60667/SigH_42C_rep2.SE.a.GPS/SigH_42C_rep2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-13-E.coli-SigH-GSE60667-SigH_42C_rep2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 14-E.coli-YqhC-YiaU-YahB-GSE158683/yahB_1.SE.a.GPS/yahB_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-14-E.coli-YqhC-YiaU-YahB-GSE158683-yahB_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 14-E.coli-YqhC-YiaU-YahB-GSE158683/yahB_2.SE.a.GPS/yahB_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-14-E.coli-YqhC-YiaU-YahB-GSE158683-yahB_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 14-E.coli-YqhC-YiaU-YahB-GSE158683/yiaU_1.SE.a.GPS/yiaU_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-14-E.coli-YqhC-YiaU-YahB-GSE158683-yiaU_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 14-E.coli-YqhC-YiaU-YahB-GSE158683/yiaU_2.SE.a.GPS/yiaU_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-14-E.coli-YqhC-YiaU-YahB-GSE158683-yiaU_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 14-E.coli-YqhC-YiaU-YahB-GSE158683/yqhC_1.SE.a.GPS/yqhC_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-14-E.coli-YqhC-YiaU-YahB-GSE158683-yqhC_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 14-E.coli-YqhC-YiaU-YahB-GSE158683/yqhC_2.SE.a.GPS/yqhC_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-14-E.coli-YqhC-YiaU-YahB-GSE158683-yqhC_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851/BaeR1_Chipexo.SE.a.GPS/BaeR1_Chipexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851-BaeR1_Chipexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851/BaeR2_Chipexo.SE.a.GPS/BaeR2_Chipexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851-BaeR2_Chipexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851/CpxR1_Chipexo.SE.a.GPS/CpxR1_Chipexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851-CpxR1_Chipexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851/CpxR2_Chipexo.SE.a.GPS/CpxR2_Chipexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851-CpxR2_Chipexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851/KdpE1_Chipexo.SE.a.GPS/KdpE1_Chipexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851-KdpE1_Chipexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851/KdpE2_Chipexo.SE.a.GPS/KdpE2_Chipexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851-KdpE2_Chipexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851/PhoB1_Chipexo.SE.a.GPS/PhoB1_Chipexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851-PhoB1_Chipexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851/PhoB2_Chipexo.SE.a.GPS/PhoB2_Chipexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851-PhoB2_Chipexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851/ZraR1_Chipexo.SE.a.GPS/ZraR1_Chipexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851-ZraR1_Chipexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851/ZraR2_Chipexo.SE.a.GPS/ZraR2_Chipexo.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-15-E.coli-BaeSR-CpxAR-KdpDE-PhoRB-ZraSR-GSE143851-ZraR2_Chipexo.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 16-E.coli-ydhB-GSE166465/ydhB_1.SE.a.GPS/ydhB_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-16-E.coli-ydhB-GSE166465-ydhB_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 16-E.coli-ydhB-GSE166465/ydhB_2.SE.a.GPS/ydhB_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-16-E.coli-ydhB-GSE166465-ydhB_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/Dps_1.SE.a.GPS/Dps_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-Dps_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/Dps_2.SE.a.GPS/Dps_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-Dps_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/Fis_1.SE.a.GPS/Fis_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-Fis_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/Fis_2.SE.a.GPS/Fis_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-Fis_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/GyrA_1.SE.a.GPS/GyrA_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-GyrA_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/GyrA_2.SE.a.GPS/GyrA_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-GyrA_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/GyrB_1.SE.a.GPS/GyrB_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-GyrB_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/GyrB_2.SE.a.GPS/GyrB_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-GyrB_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/H-NS_1.SE.a.GPS/H-NS_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-H-NS_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/H-NS_2.SE.a.GPS/H-NS_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-H-NS_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/HupA_1.SE.a.GPS/HupA_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-HupA_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/HupA_2.SE.a.GPS/HupA_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-HupA_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/HupB_1.SE.a.GPS/HupB_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-HupB_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/HupB_2.SE.a.GPS/HupB_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-HupB_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/InfA_1.SE.a.GPS/InfA_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-InfA_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/InfA_2.SE.a.GPS/InfA_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-InfA_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/MukB_1.SE.a.GPS/MukB_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-MukB_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/MukB_2.SE.a.GPS/MukB_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-MukB_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/RdgC_1.SE.a.GPS/RdgC_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-RdgC_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/RdgC_2.SE.a.GPS/RdgC_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-RdgC_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/Rob_1.SE.a.GPS/Rob_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-Rob_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/Rob_2.SE.a.GPS/Rob_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-Rob_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/StpA_1.SE.a.GPS/StpA_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-StpA_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/StpA_2.SE.a.GPS/StpA_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-StpA_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/TopA_1.SE.a.GPS/TopA_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-TopA_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/TopA_2.SE.a.GPS/TopA_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-TopA_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/Tus_1.SE.a.GPS/Tus_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-Tus_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 17-E.coli-nucleoid_associated_proteins-GSE181767/Tus_2.SE.a.GPS/Tus_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-17-E.coli-nucleoid_associated_proteins-GSE181767-Tus_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 18-E.coli-narL-puuR-rcsA-GSE181772/narL_1.SE.a.GPS/narL_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-18-E.coli-narL-puuR-rcsA-GSE181772-narL_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 18-E.coli-narL-puuR-rcsA-GSE181772/narL_2.SE.a.GPS/narL_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-18-E.coli-narL-puuR-rcsA-GSE181772-narL_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 18-E.coli-narL-puuR-rcsA-GSE181772/puuR_1.SE.a.GPS/puuR_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-18-E.coli-narL-puuR-rcsA-GSE181772-puuR_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 18-E.coli-narL-puuR-rcsA-GSE181772/puuR_2.SE.a.GPS/puuR_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-18-E.coli-narL-puuR-rcsA-GSE181772-puuR_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 18-E.coli-narL-puuR-rcsA-GSE181772/rcsA_1.SE.a.GPS/rcsA_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-18-E.coli-narL-puuR-rcsA-GSE181772-rcsA_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 18-E.coli-narL-puuR-rcsA-GSE181772/rcsA_2.SE.a.GPS/rcsA_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-18-E.coli-narL-puuR-rcsA-GSE181772-rcsA_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 19-E.coli-ZraR-GSE181993/ZraR_1.SE.a.GPS/ZraR_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-19-E.coli-ZraR-GSE181993-ZraR_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 19-E.coli-ZraR-GSE181993/ZraR_2.SE.a.GPS/ZraR_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-19-E.coli-ZraR-GSE181993-ZraR_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/rpoB_myc-tag_1.SE.a.GPS/rpoB_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-rpoB_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/rpoB_myc-tag_2.SE.a.GPS/rpoB_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-rpoB_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/rpoD_myc-tag_1.SE.a.GPS/rpoD_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-rpoD_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/rpoD_myc-tag_2.SE.a.GPS/rpoD_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-rpoD_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yahB_myc-tag_1.SE.a.GPS/yahB_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yahB_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yahB_myc-tag_2.SE.a.GPS/yahB_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yahB_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ybcM_myc-tag_1.SE.a.GPS/ybcM_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ybcM_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ybcM_myc-tag_2.SE.a.GPS/ybcM_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ybcM_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ybdO_myc-tag_1.SE.a.GPS/ybdO_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ybdO_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ybdO_myc-tag_2.SE.a.GPS/ybdO_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ybdO_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ybeF_myc-tag_1.SE.a.GPS/ybeF_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ybeF_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ybeF_myc-tag_2.SE.a.GPS/ybeF_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ybeF_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ybhD_myc-tag_1.SE.a.GPS/ybhD_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ybhD_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ybhD_myc-tag_2.SE.a.GPS/ybhD_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ybhD_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ycaN_myc-tag_1.SE.a.GPS/ycaN_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ycaN_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ycaN_myc-tag_2.SE.a.GPS/ycaN_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ycaN_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ycfQ_myc-tag_1.SE.a.GPS/ycfQ_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ycfQ_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ycfQ_myc-tag_2.SE.a.GPS/ycfQ_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ycfQ_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yciT_myc-tag_1.SE.a.GPS/yciT_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yciT_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yciT_myc-tag_2.SE.a.GPS/yciT_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yciT_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ycjW_myc-tag_1.SE.a.GPS/ycjW_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ycjW_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ycjW_myc-tag_2.SE.a.GPS/ycjW_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ycjW_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ydcN_myc-tag_1.SE.a.GPS/ydcN_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ydcN_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ydcN_myc-tag_2.SE.a.GPS/ydcN_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ydcN_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ydcR_myc-tag_1.SE.a.GPS/ydcR_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ydcR_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ydcR_myc-tag_2.SE.a.GPS/ydcR_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ydcR_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ydhB_myc-tag_1.SE.a.GPS/ydhB_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ydhB_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ydhB_myc-tag_2.SE.a.GPS/ydhB_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ydhB_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ydiP_myc-tag_1.SE.a.GPS/ydiP_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ydiP_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ydiP_myc-tag_2.SE.a.GPS/ydiP_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ydiP_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yeaM_myc-tag_1.SE.a.GPS/yeaM_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yeaM_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yeaM_myc-tag_2.SE.a.GPS/yeaM_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yeaM_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yebK_myc-tag_1.SE.a.GPS/yebK_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yebK_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yebK_myc-tag_2.SE.a.GPS/yebK_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yebK_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yedW_myc-tag_1.SE.a.GPS/yedW_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yedW_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yedW_myc-tag_2.SE.a.GPS/yedW_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yedW_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yeeY_myc-tag_1.SE.a.GPS/yeeY_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yeeY_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yeeY_myc-tag_2.SE.a.GPS/yeeY_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yeeY_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yehT_myc-tag_1.SE.a.GPS/yehT_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yehT_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yehT_myc-tag_2.SE.a.GPS/yehT_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yehT_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yfeC_myc-tag_1.SE.a.GPS/yfeC_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yfeC_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yfeC_myc-tag_2.SE.a.GPS/yfeC_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yfeC_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yfeD_myc-tag_1.SE.a.GPS/yfeD_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yfeD_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yfeD_myc-tag_2.SE.a.GPS/yfeD_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yfeD_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yfiE_myc-tag_1.SE.a.GPS/yfiE_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yfiE_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yfiE_myc-tag_2.SE.a.GPS/yfiE_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yfiE_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yfjR_myc-tag_1.SE.a.GPS/yfjR_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yfjR_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yfjR_myc-tag_2.SE.a.GPS/yfjR_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yfjR_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ygaV_myc-tag_1.SE.a.GPS/ygaV_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ygaV_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ygaV_myc-tag_2.SE.a.GPS/ygaV_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ygaV_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ygbI_myc-tag_1.SE.a.GPS/ygbI_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ygbI_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ygbI_myc-tag_2.SE.a.GPS/ygbI_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ygbI_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ygeR_myc-tag_1.SE.a.GPS/ygeR_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ygeR_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ygeR_myc-tag_2.SE.a.GPS/ygeR_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ygeR_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ygfI_myc-tag_1.SE.a.GPS/ygfI_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ygfI_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ygfI_myc-tag_2.SE.a.GPS/ygfI_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ygfI_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yggD_myc-tag_1.SE.a.GPS/yggD_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yggD_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yggD_myc-tag_2.SE.a.GPS/yggD_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yggD_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yhjB_myc-tag_1.SE.a.GPS/yhjB_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yhjB_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yhjB_myc-tag_2.SE.a.GPS/yhjB_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yhjB_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yhjC_myc-tag_1.SE.a.GPS/yhjC_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yhjC_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yhjC_myc-tag_2.SE.a.GPS/yhjC_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yhjC_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yiaU_myc-tag_1.SE.a.GPS/yiaU_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yiaU_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yiaU_myc-tag_2.SE.a.GPS/yiaU_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yiaU_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yidL_myc-tag_1.SE.a.GPS/yidL_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yidL_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yidL_myc-tag_2.SE.a.GPS/yidL_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yidL_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yidZ_myc-tag_1.SE.a.GPS/yidZ_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yidZ_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yidZ_myc-tag_2.SE.a.GPS/yidZ_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yidZ_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yihL_myc-tag_1.SE.a.GPS/yihL_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yihL_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yihL_myc-tag_2.SE.a.GPS/yihL_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yihL_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yihW_myc-tag_1.SE.a.GPS/yihW_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yihW_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yihW_myc-tag_2.SE.a.GPS/yihW_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yihW_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yjhI_myc-tag_1.SE.a.GPS/yjhI_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yjhI_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yjhI_myc-tag_2.SE.a.GPS/yjhI_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yjhI_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yneJ_myc-tag_1.SE.a.GPS/yneJ_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yneJ_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yneJ_myc-tag_2.SE.a.GPS/yneJ_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yneJ_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ynfL_myc-tag_1.SE.a.GPS/ynfL_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ynfL_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ynfL_myc-tag_2.SE.a.GPS/ynfL_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ynfL_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ypdC_myc-tag_1.SE.a.GPS/ypdC_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ypdC_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/ypdC_myc-tag_2.SE.a.GPS/ypdC_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-ypdC_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yqhC_myc-tag_1.SE.a.GPS/yqhC_myc-tag_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yqhC_myc-tag_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 20-E.coli-uncharacterized-GSE159777/yqhC_myc-tag_2.SE.a.GPS/yqhC_myc-tag_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-20-E.coli-uncharacterized-GSE159777-yqhC_myc-tag_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_1.SE.a.GPS/ArcA_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_2A1.SE.a.GPS/ArcA_2A1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_2A1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_2B6.SE.a.GPS/ArcA_2B6.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_2B6.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_2C4.SE.a.GPS/ArcA_2C4.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_2C4.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_2D6.SE.a.GPS/ArcA_2D6.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_2D6.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_2.SE.a.GPS/ArcA_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_4A1.SE.a.GPS/ArcA_4A1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_4A1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_4A3.SE.a.GPS/ArcA_4A3.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_4A3.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_4D6.SE.a.GPS/ArcA_4D6.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_4D6.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_5A10.SE.a.GPS/ArcA_5A10.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_5A10.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_5B6.SE.a.GPS/ArcA_5B6.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_5B6.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_5B9.SE.a.GPS/ArcA_5B9.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_5B9.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_5F9.SE.a.GPS/ArcA_5F9.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_5F9.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_5G8.SE.a.GPS/ArcA_5G8.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_5G8.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_7B10.SE.a.GPS/ArcA_7B10.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_7B10.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_8B2.SE.a.GPS/ArcA_8B2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_8B2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_M2.SE.a.GPS/ArcA_M2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_M2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 21-E.coli-ArcA-GSE182077/ArcA_M4.SE.a.GPS/ArcA_M4.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-21-E.coli-ArcA-GSE182077-ArcA_M4.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/Nac_ammonia_1.SE.a.GPS/Nac_ammonia_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-Nac_ammonia_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/Nac_ammonia_2.SE.a.GPS/Nac_ammonia_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-Nac_ammonia_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/Nac_cytidine_1.SE.a.GPS/Nac_cytidine_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-Nac_cytidine_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/Nac_cytidine_2.SE.a.GPS/Nac_cytidine_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-Nac_cytidine_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/Nac_cytosine_1.SE.a.GPS/Nac_cytosine_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-Nac_cytosine_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/Nac_cytosine_2.SE.a.GPS/Nac_cytosine_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-Nac_cytosine_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/Nac_glutamine_1.SE.a.GPS/Nac_glutamine_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-Nac_glutamine_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/Nac_glutamine_2.SE.a.GPS/Nac_glutamine_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-Nac_glutamine_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/NtrC_ammonia_1.SE.a.GPS/NtrC_ammonia_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-NtrC_ammonia_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/NtrC_ammonia_2.SE.a.GPS/NtrC_ammonia_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-NtrC_ammonia_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/NtrC_cytidine_1.SE.a.GPS/NtrC_cytidine_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-NtrC_cytidine_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/NtrC_cytidine_2.SE.a.GPS/NtrC_cytidine_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-NtrC_cytidine_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/NtrC_cytosine_1.SE.a.GPS/NtrC_cytosine_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-NtrC_cytosine_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/NtrC_cytosine_2.SE.a.GPS/NtrC_cytosine_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-NtrC_cytosine_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/NtrC_glutamine_1.SE.a.GPS/NtrC_glutamine_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-NtrC_glutamine_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/NtrC_glutamine_2.SE.a.GPS/NtrC_glutamine_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-NtrC_glutamine_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoD_ammonia_1.SE.a.GPS/RpoD_ammonia_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoD_ammonia_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoD_ammonia_2.SE.a.GPS/RpoD_ammonia_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoD_ammonia_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoD_cytidine_1.SE.a.GPS/RpoD_cytidine_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoD_cytidine_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoD_cytidine_2.SE.a.GPS/RpoD_cytidine_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoD_cytidine_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoD_cytosine_1.SE.a.GPS/RpoD_cytosine_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoD_cytosine_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoD_cytosine_2.SE.a.GPS/RpoD_cytosine_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoD_cytosine_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoD_glutamine_1.SE.a.GPS/RpoD_glutamine_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoD_glutamine_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoD_glutamine_2.SE.a.GPS/RpoD_glutamine_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoD_glutamine_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoN_ammonia_1.SE.a.GPS/RpoN_ammonia_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoN_ammonia_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoN_ammonia_2.SE.a.GPS/RpoN_ammonia_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoN_ammonia_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoN_cytidine_1.SE.a.GPS/RpoN_cytidine_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoN_cytidine_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoN_cytidine_2.SE.a.GPS/RpoN_cytidine_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoN_cytidine_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoN_cytosine_1.SE.a.GPS/RpoN_cytosine_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoN_cytosine_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoN_cytosine_2.SE.a.GPS/RpoN_cytosine_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoN_cytosine_2.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoN_glutamine_1.SE.a.GPS/RpoN_glutamine_1.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoN_glutamine_1.SE.a.GPS.profile -bismark.cov -unstranded
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py 22-E.coli-NtrC-Nac-GSE54902/RpoN_glutamine_2.SE.a.GPS/RpoN_glutamine_2.SE.a.GPS.GPS_events.0bp-radius.bed 0 1 2 500 1 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-PBAT-NOME_dSMF/L3426-E_coli_XL-SMF_100_15uL_CseDa01/L3426-E_coli_XL-SMF_100_15uL_CseDa01.1x300mers-trimmed.bwameth_CHH.bedGraph.gz L3426-22-E.coli-NtrC-Nac-GSE54902-RpoN_glutamine_2.SE.a.GPS.profile -bismark.cov -unstranded