/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t K562-Oct4-Snyder-Rep1-ENCFF002EEQ.36mers.unique.bam -c K562-Control-Snyder-Rep1-ENCFF002ECW.36mers.unique.bam -n K562-Oct4-Snyder-Rep1-ENCFF002EEQ.36mers.unique.MACS-2.1.0 -g hs -f BAM
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t K562-Oct4-Snyder-Rep1-ENCFF002EEN.36mers.unique.bam -c K562-Control-Snyder-Rep1-ENCFF002ECS.36mers.unique.bam -n K562-Oct4-Snyder-Rep1-ENCFF002EEN.36mers.unique.MACS-2.1.0 -g hs -f BAM
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t GM23338-Oct4-HAIB-Rep1-ENCFF647APA.36mers.unique.bam -c GM23338-Control-HAIB-Rep1-ENCFF484RXR.36mers.unique.bam -n GM23338-Oct4-HAIB-Rep1-ENCFF647APA.36mers.unique.MACS-2.1.0 -g hs -f BAM
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t GM23338-Oct4-HAIB-Rep2-ENCFF986KEK.36mers.unique.bam -c GM23338-Control-HAIB-Rep2-ENCFF252PYF.36mers.unique.bam -n GM23338-Oct4-HAIB-Rep2-ENCFF986KEK.36mers.unique.MACS-2.1.0 -g hs -f BAM
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t H1-hESC-Oct4-HAIB-Rep1-ENCFF000ORV.36mers.unique.bam -c H1-hESC-Control-HAIB-Rep1-ENCFF000OST.36mers.unique.bam -n H1-hESC-Oct4-HAIB-Rep1-ENCFF000ORV.36mers.unique.MACS-2.1.0 -g hs -f BAM
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t H1-hESC-Oct4-HAIB-Rep2-ENCFF000ORW.36mers.unique.bam -c H1-hESC-Control-HAIB-Rep2-ENCFF000OSS.36mers.unique.bam -n H1-hESC-Oct4-HAIB-Rep2-ENCFF000ORW.36mers.unique.MACS-2.1.0 -g hs -f BAM
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t K562-Oct4-Snyder-Rep1-ENCFF002EEQ.36mers.unique.bam -c K562-Control-Snyder-Rep1-ENCFF002ECW.36mers.unique.bam -n K562-Oct4-Snyder-Rep1-ENCFF002EEQ.36mers.unique.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t K562-Oct4-Snyder-Rep1-ENCFF002EEN.36mers.unique.bam -c K562-Control-Snyder-Rep1-ENCFF002ECS.36mers.unique.bam -n K562-Oct4-Snyder-Rep1-ENCFF002EEN.36mers.unique.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t GM23338-Oct4-HAIB-Rep1-ENCFF647APA.36mers.unique.bam -c GM23338-Control-HAIB-Rep1-ENCFF484RXR.36mers.unique.bam -n GM23338-Oct4-HAIB-Rep1-ENCFF647APA.36mers.unique.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t GM23338-Oct4-HAIB-Rep2-ENCFF986KEK.36mers.unique.bam -c GM23338-Control-HAIB-Rep2-ENCFF252PYF.36mers.unique.bam -n GM23338-Oct4-HAIB-Rep2-ENCFF986KEK.36mers.unique.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t H1-hESC-Oct4-HAIB-Rep1-ENCFF000ORV.36mers.unique.bam -c H1-hESC-Control-HAIB-Rep1-ENCFF000OST.36mers.unique.bam -n H1-hESC-Oct4-HAIB-Rep1-ENCFF000ORV.36mers.unique.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t H1-hESC-Oct4-HAIB-Rep2-ENCFF000ORW.36mers.unique.bam -c H1-hESC-Control-HAIB-Rep2-ENCFF000OSS.36mers.unique.bam -n H1-hESC-Oct4-HAIB-Rep2-ENCFF000ORW.36mers.unique.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t K562-Oct4-Snyder.dedup.merged.bam -c K562-Control-Snyder.dedup.merged.bam -n K562-Oct4-Snyder.dedup.merged.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t GM23338-Oct4-HAIB.dedup.merged.bam -c GM23338-Control-HAIB.dedup.merged.bam -n GM23338-Oct4-HAIB.dedup.merged.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t H1-hESC-Oct4-HAIB.dedup.merged.bam -c H1-hESC-Control-HAIB.dedup.merged.bam -n H1-hESC-Oct4-HAIB.dedup.merged.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t K562-Oct4-Snyder.dedup.merged.pseudoRep1.bam -c K562-Control-Snyder.dedup.merged.pseudoRep1.bam -n K562-Oct4-Snyder.dedup.merged.pseudoRep1.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t GM23338-Oct4-HAIB.dedup.merged.pseudoRep1.bam -c GM23338-Control-HAIB.dedup.merged.pseudoRep1.bam -n GM23338-Oct4-HAIB.dedup.merged.pseudoRep1.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t H1-hESC-Oct4-HAIB.dedup.merged.pseudoRep1.bam -c H1-hESC-Control-HAIB.dedup.merged.pseudoRep1.bam -n H1-hESC-Oct4-HAIB.dedup.merged.pseudoRep1.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t K562-Oct4-Snyder.dedup.merged.pseudoRep2.bam -c K562-Control-Snyder.dedup.merged.pseudoRep2.bam -n K562-Oct4-Snyder.dedup.merged.pseudoRep2.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t GM23338-Oct4-HAIB.dedup.merged.pseudoRep2.bam -c GM23338-Control-HAIB.dedup.merged.pseudoRep2.bam -n GM23338-Oct4-HAIB.dedup.merged.pseudoRep2.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
/oak/stanford/groups/akundaje/marinovg/programs/MACS-2.1.0/bin/macs2 callpeak -t H1-hESC-Oct4-HAIB.dedup.merged.pseudoRep2.bam -c H1-hESC-Control-HAIB.dedup.merged.pseudoRep2.bam -n H1-hESC-Oct4-HAIB.dedup.merged.pseudoRep2.MACS-2.1.0.p1e-1 -g hs -f BAM --to-large -p 1e-1
