module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples Cln3-MS49-SCD.2x36mers.unique.nochrM.dedup.merged.sorted.pseudoRep1.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz Cln3-MS49-SCD.2x36mers.unique.nochrM.dedup.merged.sorted.pseudoRep2.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file Cln3-MS49-SCD.2x36mers.nochrM.dedup.MACS-2.1.0.pseudoreps.noPL.IDR --rank p.value --soft-idr-threshold 0.10 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples Cln3-MS49-SCE.2x36mers.unique.nochrM.dedup.merged.sorted.pseudoRep1.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz Cln3-MS49-SCE.2x36mers.unique.nochrM.dedup.merged.sorted.pseudoRep2.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file Cln3-MS49-SCE.2x36mers.nochrM.dedup.MACS-2.1.0.pseudoreps.noPL.IDR --rank p.value --soft-idr-threshold 0.10 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples Whi5-MS51-SCD.2x36mers.unique.nochrM.dedup.merged.sorted.pseudoRep1.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz Whi5-MS51-SCD.2x36mers.unique.nochrM.dedup.merged.sorted.pseudoRep2.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file Whi5-MS51-SCD.2x36mers.nochrM.dedup.MACS-2.1.0.pseudoreps.noPL.IDR --rank p.value --soft-idr-threshold 0.10 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples Whi5-MS51-SCE.2x36mers.unique.nochrM.dedup.merged.sorted.pseudoRep1.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz Whi5-MS51-SCE.2x36mers.unique.nochrM.dedup.merged.sorted.pseudoRep2.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file Whi5-MS51-SCE.2x36mers.nochrM.dedup.MACS-2.1.0.pseudoreps.noPL.IDR --rank p.value --soft-idr-threshold 0.10 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples WT-MS1-SCD.2x36mers.unique.nochrM.dedup.merged.sorted.pseudoRep1.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz WT-MS1-SCD.2x36mers.unique.nochrM.dedup.merged.sorted.pseudoRep2.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file WT-MS1-SCD.2x36mers.nochrM.dedup.MACS-2.1.0.pseudoreps.noPL.IDR --rank p.value --soft-idr-threshold 0.10 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples WT-MS1-SCE.2x36mers.unique.nochrM.dedup.merged.sorted.pseudoRep1.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz WT-MS1-SCE.2x36mers.unique.nochrM.dedup.merged.sorted.pseudoRep2.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file WT-MS1-SCE.2x36mers.nochrM.dedup.MACS-2.1.0.pseudoreps.noPL.IDR --rank p.value --soft-idr-threshold 0.10 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples Cln3-MS49-SCD-rep1_S8.2x36mers.unique.nochrM.dedup.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz Cln3-MS49-SCD-rep2_S11.2x36mers.unique.nochrM.dedup.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file Cln3-MS49-SCD.2x36mers.nochrM.dedup.MACS-2.1.0.ind-reps.noPL.IDR --rank p.value --soft-idr-threshold 0.10 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples Cln3-MS49-SCE-rep1_S2.2x36mers.unique.nochrM.dedup.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz Cln3-MS49-SCE-rep2_S5.2x36mers.unique.nochrM.dedup.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file Cln3-MS49-SCE.2x36mers.nochrM.dedup.MACS-2.1.0.ind-reps.noPL.IDR --rank p.value --soft-idr-threshold 0.10 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples Whi5-MS51-SCD-rep1_S9.2x36mers.unique.nochrM.dedup.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz Whi5-MS51-SCD-rep2_S12.2x36mers.unique.nochrM.dedup.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file Whi5-MS51-SCD.2x36mers.nochrM.dedup.MACS-2.1.0.ind-reps.noPL.IDR --rank p.value --soft-idr-threshold 0.10 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples Whi5-MS51-SCE-rep1_S3.2x36mers.unique.nochrM.dedup.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz Whi5-MS51-SCE-rep2_S6.2x36mers.unique.nochrM.dedup.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file Whi5-MS51-SCE.2x36mers.nochrM.dedup.MACS-2.1.0.ind-reps.noPL.IDR --rank p.value --soft-idr-threshold 0.10 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples WT-MS1-SCD-rep1_S7.2x36mers.unique.nochrM.dedup.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz WT-MS1-SCD-rep2_S10.2x36mers.unique.nochrM.dedup.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file WT-MS1-SCD.2x36mers.nochrM.dedup.MACS-2.1.0.ind-reps.noPL.IDR --rank p.value --soft-idr-threshold 0.10 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples WT-MS1-SCE-rep1_S1.2x36mers.unique.nochrM.dedup.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz WT-MS1-SCE-rep2_S4.2x36mers.unique.nochrM.dedup.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file WT-MS1-SCE.2x36mers.nochrM.dedup.MACS-2.1.0.ind-reps.noPL.IDR --rank p.value --soft-idr-threshold 0.10 --plot --use-best-multisummit-IDR