python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/genomes/hg38/2016-11-16-refFlat.TSS-0bp.bed 0 1 3 1000 1 L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat.TSS-profile-L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/genomes/hg38/2016-11-16-refFlat.TSS-0bp.bed 0 1 3 1000 1 L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat.TSS-profile-L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/genomes/hg38/2016-11-16-refFlat.TSS-0bp.bed 0 1 3 1000 1 L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat.TSS-profile-L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/genomes/hg38/2016-11-16-refFlat.TSS-0bp.bed 0 1 3 1000 1 L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat.TSS-profile-L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/genomes/hg38/2016-11-16-refFlat.TSS-0bp.bed 0 1 3 1000 1 L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat.TSS-profile-L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/K562-CTCF-ENCFF119XFJ-vs-FIMO-intersection2.gz 2 3 5 1000 1 L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz K562-CTCF-ENCFF119XFJ-vs-FIMO-intersection2-profile-L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/K562-CTCF-ENCFF119XFJ-vs-FIMO-intersection2.gz 2 3 5 1000 1 L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz K562-CTCF-ENCFF119XFJ-vs-FIMO-intersection2-profile-L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/K562-CTCF-ENCFF119XFJ-vs-FIMO-intersection2.gz 2 3 5 1000 1 L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz K562-CTCF-ENCFF119XFJ-vs-FIMO-intersection2-profile-L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/K562-CTCF-ENCFF119XFJ-vs-FIMO-intersection2.gz 2 3 5 1000 1 L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz K562-CTCF-ENCFF119XFJ-vs-FIMO-intersection2-profile-L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/K562-CTCF-ENCFF119XFJ-vs-FIMO-intersection2.gz 2 3 5 1000 1 L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz K562-CTCF-ENCFF119XFJ-vs-FIMO-intersection2-profile-L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/K562-REST-ENCFF707MDI-vs-FIMO-intersection2.gz 2 3 5 1000 1 L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz K562-REST-ENCFF707MDI-vs-FIMO-intersection2-profile-L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/K562-REST-ENCFF707MDI-vs-FIMO-intersection2.gz 2 3 5 1000 1 L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz K562-REST-ENCFF707MDI-vs-FIMO-intersection2-profile-L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/K562-REST-ENCFF707MDI-vs-FIMO-intersection2.gz 2 3 5 1000 1 L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz K562-REST-ENCFF707MDI-vs-FIMO-intersection2-profile-L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/K562-REST-ENCFF707MDI-vs-FIMO-intersection2.gz 2 3 5 1000 1 L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz K562-REST-ENCFF707MDI-vs-FIMO-intersection2-profile-L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/K562-REST-ENCFF707MDI-vs-FIMO-intersection2.gz 2 3 5 1000 1 L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz K562-REST-ENCFF707MDI-vs-FIMO-intersection2-profile-L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-top10perc-RPKM.bed 0 1 3 1000 1 L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-top10perc.TSS-profile-L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-top10perc-RPKM.bed 0 1 3 1000 1 L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-top10perc.TSS-profile-L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-top10perc-RPKM.bed 0 1 3 1000 1 L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-top10perc.TSS-profile-L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-top10perc-RPKM.bed 0 1 3 1000 1 L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-top10perc.TSS-profile-L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-top10perc-RPKM.bed 0 1 3 1000 1 L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-top10perc.TSS-profile-L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-10-20perc-RPKM.bed 0 1 3 1000 1 L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-10-20perc.TSS-profile-L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-10-20perc-RPKM.bed 0 1 3 1000 1 L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-10-20perc.TSS-profile-L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-10-20perc-RPKM.bed 0 1 3 1000 1 L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-10-20perc.TSS-profile-L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-10-20perc-RPKM.bed 0 1 3 1000 1 L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-10-20perc.TSS-profile-L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-10-20perc-RPKM.bed 0 1 3 1000 1 L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-10-20perc.TSS-profile-L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-20-50perc-RPKM.bed 0 1 3 1000 1 L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-20-50perc.TSS-profile-L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-20-50perc-RPKM.bed 0 1 3 1000 1 L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-20-50perc.TSS-profile-L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-20-50perc-RPKM.bed 0 1 3 1000 1 L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-20-50perc.TSS-profile-L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-20-50perc-RPKM.bed 0 1 3 1000 1 L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-20-50perc.TSS-profile-L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-20-50perc-RPKM.bed 0 1 3 1000 1 L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-20-50perc.TSS-profile-L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-bottom50perc-RPKM.bed 0 1 3 1000 1 L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-bottom50perc.TSS-profile-L3017-K562-CseDa01-XL-SMF-15min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-bottom50perc-RPKM.bed 0 1 3 1000 1 L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-bottom50perc.TSS-profile-L3018-K562-CseDa01-XL-SMF-60min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-bottom50perc-RPKM.bed 0 1 3 1000 1 L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-bottom50perc.TSS-profile-L3019-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-bottom50perc-RPKM.bed 0 1 3 1000 1 L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-bottom50perc.TSS-profile-L3020-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/signalAroundPeaks-nano.py /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2024-09-29-NextSeq/2016-11-16-refFlat.TSS-0bp.K562-bottom50perc-RPKM.bed 0 1 3 1000 1 L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report.txt.gz 2016-11-16-refFlat-K562-bottom50perc.TSS-profile-L3021-K562-CseDa01-XL-SMF-180min-1uL.1x150mers-trimmed.bwameth.hg38.stranded.cytosine_report -cytosine_report &