python ~/code/SAMstats.py 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.bam SAMstats-35S-SUC2-Input-rep1-GSM1419602 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.chrM+chloroplast.k3m2.bam SAMstats-35S-SUC2-Input-rep1-GSM1419602.chrM+chloroplast.k3m2 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.bam SAMstats-35S-SUC2-Input-rep2-GSM1419603 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.chrM+chloroplast.k3m2.bam SAMstats-35S-SUC2-Input-rep2-GSM1419603.chrM+chloroplast.k3m2 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.bam SAMstats-35S-SUC2-Myc-ChIP-rep1-GSM1419604 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.chrM+chloroplast.k3m2.bam SAMstats-35S-SUC2-Myc-ChIP-rep1-GSM1419604.chrM+chloroplast.k3m2 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.bam SAMstats-35S-SUC2-Myc-ChIP-rep2-GSM1419605 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.chrM+chloroplast.k3m2.bam SAMstats-35S-SUC2-Myc-ChIP-rep2-GSM1419605.chrM+chloroplast.k3m2 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.bam SAMstats-MBD7-5-Input-rep1-GSM1419606 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py MBD7-5-Input-rep1-GSM1419606/all.1x36mers.chrM+chloroplast.k3m2.bam SAMstats-MBD7-5-Input-rep1-GSM1419606.chrM+chloroplast.k3m2 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.bam SAMstats-MBD7-5-Input-rep2-GSM1419607 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py MBD7-5-Input-rep2-GSM1419607/all.1x36mers.chrM+chloroplast.k3m2.bam SAMstats-MBD7-5-Input-rep2-GSM1419607.chrM+chloroplast.k3m2 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.bam SAMstats-MBD7-5-Myc-ChIP-rep1-GSM1419608 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.chrM+chloroplast.k3m2.bam SAMstats-MBD7-5-Myc-ChIP-rep1-GSM1419608.chrM+chloroplast.k3m2 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.bam SAMstats-MBD7-5-Myc-ChIP-rep2-GSM1419609 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
python ~/code/SAMstats.py MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.chrM+chloroplast.k3m2.bam SAMstats-MBD7-5-Myc-ChIP-rep2-GSM1419609.chrM+chloroplast.k3m2 -bam ~/genomes/TAIR10/TAIR10.chrom.sizes samtools
Rscript ~/code/spp/spp_package/run_spp.R -c=35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.bam -p=8 -savp -rf -s=-0:2:400 -out=35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.QC &
Rscript ~/code/spp/spp_package/run_spp.R -c=35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.bam -p=8 -savp -rf -s=-0:2:400 -out=35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.QC &
Rscript ~/code/spp/spp_package/run_spp.R -c=35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.bam -p=8 -savp -rf -s=-0:2:400 -out=35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.QC &
Rscript ~/code/spp/spp_package/run_spp.R -c=35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.bam -p=8 -savp -rf -s=-0:2:400 -out=35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.QC &
Rscript ~/code/spp/spp_package/run_spp.R -c=MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.bam -p=8 -savp -rf -s=-0:2:400 -out=MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.QC &
Rscript ~/code/spp/spp_package/run_spp.R -c=MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.bam -p=8 -savp -rf -s=-0:2:400 -out=MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.QC &
Rscript ~/code/spp/spp_package/run_spp.R -c=MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.bam -p=8 -savp -rf -s=-0:2:400 -out=MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.QC &
Rscript ~/code/spp/spp_package/run_spp.R -c=MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.bam -p=8 -savp -rf -s=-0:2:400 -out=MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.QC &
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.TAIR10.unique.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.chrM+chloroplast.k3m2.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.chrM+chloroplast.k3m2.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep1-GSM1419602/all.1x36mers.chrM+chloroplast.k3m2.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.TAIR10.unique.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.chrM+chloroplast.k3m2.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.chrM+chloroplast.k3m2.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Input-rep2-GSM1419603/all.1x36mers.chrM+chloroplast.k3m2.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.TAIR10.unique.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.chrM+chloroplast.k3m2.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.chrM+chloroplast.k3m2.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep1-GSM1419604/all.1x36mers.chrM+chloroplast.k3m2.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.TAIR10.unique.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.chrM+chloroplast.k3m2.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.chrM+chloroplast.k3m2.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes 35S-SUC2-Myc-ChIP-rep2-GSM1419605/all.1x36mers.chrM+chloroplast.k3m2.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep1-GSM1419606/all.1x36mers.TAIR10.unique.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep1-GSM1419606/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep1-GSM1419606/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep1-GSM1419606/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep1-GSM1419606/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep1-GSM1419606/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep1-GSM1419606/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep1-GSM1419606/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep1-GSM1419606/all.1x36mers.chrM+chloroplast.k3m2.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep1-GSM1419606/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep1-GSM1419606/all.1x36mers.chrM+chloroplast.k3m2.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep1-GSM1419606/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep1-GSM1419606/all.1x36mers.chrM+chloroplast.k3m2.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep2-GSM1419607/all.1x36mers.TAIR10.unique.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep2-GSM1419607/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep2-GSM1419607/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep2-GSM1419607/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep2-GSM1419607/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep2-GSM1419607/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep2-GSM1419607/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep2-GSM1419607/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep2-GSM1419607/all.1x36mers.chrM+chloroplast.k3m2.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep2-GSM1419607/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep2-GSM1419607/all.1x36mers.chrM+chloroplast.k3m2.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Input-rep2-GSM1419607/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Input-rep2-GSM1419607/all.1x36mers.chrM+chloroplast.k3m2.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.TAIR10.unique.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.chrM+chloroplast.k3m2.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.chrM+chloroplast.k3m2.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep1-GSM1419608/all.1x36mers.chrM+chloroplast.k3m2.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.TAIR10.unique.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM -uniqueBAM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.chrM+chloroplast.k3m2.chloroplast.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chloroplast
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.chrM+chloroplast.k3m2.chrM.RPM.wig -RPM -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.chrM+chloroplast.k3m2.chrM.minus.RPM.wig -RPM -stranded - -notitle -singlebasepair -mismatchesMD 0 -chr chrM
python ~/code/makewigglefromBAM-NH.py === MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.chrM+chloroplast.k3m2.bam ~/genomes/TAIR10/TAIR10.chrom.sizes MBD7-5-Myc-ChIP-rep2-GSM1419609/all.1x36mers.chrM+chloroplast.k3m2.chrM.plus.RPM.wig -RPM -stranded + -notitle -singlebasepair -mismatchesMD 0 -chr chrM