module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples GM23338-Oct4-HAIB.dedup.merged.pseudoRep1.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz GM23338-Oct4-HAIB.dedup.merged.pseudoRep2.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file GM23338-Oct4-HAIB.dedup.merged.pseudoReps.IDR --rank p.value --soft-idr-threshold 0.05 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples GM23338-Oct4-HAIB-Rep1-ENCFF647APA.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz GM23338-Oct4-HAIB-Rep2-ENCFF986KEK.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file GM23338-Oct4-HAIB.indReps.IDR --rank p.value --soft-idr-threshold 0.05 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples H1-hESC-Oct4-HAIB.dedup.merged.pseudoRep1.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz H1-hESC-Oct4-HAIB.dedup.merged.pseudoRep2.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file H1-hESC-Oct4-HAIB.dedup.merged.pseudoReps.IDR --rank p.value --soft-idr-threshold 0.05 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples H1-hESC-Oct4-HAIB-Rep1-ENCFF000ORV.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz H1-hESC-Oct4-HAIB-Rep2-ENCFF000ORW.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file H1-hESC-Oct4-HAIB.indReps.IDR --rank p.value --soft-idr-threshold 0.05 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples K562-Oct4-Snyder.dedup.merged.pseudoRep1.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz K562-Oct4-Snyder.dedup.merged.pseudoRep2.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file K562-Oct4-Snyder.dedup.merged.pseudoReps.IDR --rank p.value --soft-idr-threshold 0.05 --plot --use-best-multisummit-IDR
module load python/3.6.1; /oak/stanford/groups/akundaje/marinovg/programs/idr-2.0.4/bin/idr --samples K562-Oct4-Snyder-Rep1-ENCFF002EEN.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz K562-Oct4-Snyder-Rep1-ENCFF002EEQ.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak.sorted.gz --input-file-type narrowPeak --output-file K562-Oct4-Snyder.indReps.IDR --rank p.value --soft-idr-threshold 0.05 --plot --use-best-multisummit-IDR