Rscript ~/code/spp/spp_package/run_spp.R -c=Cross-contamination-control.1x36mers.mm10.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=Cross-contamination-control.1x36mers.mm10.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=Mouse-H3K27ac-16-tissues.1x36mers.mm10.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=Mouse-H3K27ac-16-tissues.1x36mers.mm10.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=Mouse-H3K27me3-16-tissues.1x36mers.mm10.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=Mouse-H3K27me3-16-tissues.1x36mers.mm10.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=Mouse-H3K36me3-16-tissues.1x36mers.mm10.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=Mouse-H3K36me3-16-tissues.1x36mers.mm10.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=Mouse-input-16-tissues.1x36mers.mm10.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=Mouse-input-16-tissues.1x36mers.mm10.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-CTCF-10000.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-CTCF-10000.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-CTCF-1000.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-CTCF-1000.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-CTCF-100.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-CTCF-100.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-CTCF.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-CTCF.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-H3K27ac.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-H3K27ac.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-H3K27me3-10000.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-H3K27me3-10000.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-H3K27me3-1000.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-H3K27me3-1000.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-H3K27me3-100.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-H3K27me3-100.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-H3K27me3.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-H3K27me3.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-H3K36me3.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-H3K36me3.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-H3K4me1.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-H3K4me1.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-H3K4me3-10000.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-H3K4me3-10000.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-H3K4me3-1000.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-H3K4me3-1000.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-H3K4me3-100.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-H3K4me3-100.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-H3K4me3.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-H3K4me3.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-H3K9me3.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-H3K9me3.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-input-10000.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-input-10000.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-input-1000.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-input-1000.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-input-100.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-input-100.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-input.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-input.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=RELACS-HepG2-p300.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=RELACS-HepG2-p300.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=Traditional-HepG2-CTCF.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=Traditional-HepG2-CTCF.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=Traditional-HepG2-H3K27ac.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=Traditional-HepG2-H3K27ac.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=Traditional-HepG2-H3K27me3.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=Traditional-HepG2-H3K27me3.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=Traditional-HepG2-H3K36me3.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=Traditional-HepG2-H3K36me3.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TraditionalHepG2-H3K4me1.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TraditionalHepG2-H3K4me1.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=Traditional-HepG2-H3K4me3.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=Traditional-HepG2-H3K4me3.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=Traditional-HepG2-H3K9me3.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=Traditional-HepG2-H3K9me3.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=Traditional-HepG2-input.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=Traditional-HepG2-input.1x36mers.hg38-male.unique.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=Traditional-HepG2-p300.1x36mers.hg38-male.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=Traditional-HepG2-p300.1x36mers.hg38-male.unique.QC