python ~/code/SAMstats.py L507_100ng.2x36mers.unique.dedup.bam SAMstats-L507_100ng.2x36mers.unique.dedup -bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes ~/programs/samtools-0.1.18/samtools -paired &
python ~/code/SAMstats.py L508_400ng.2x36mers.unique.dedup.bam SAMstats-L508_400ng.2x36mers.unique.dedup -bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes ~/programs/samtools-0.1.18/samtools -paired &
python ~/code/SAMstats.py L509_1ug.2x36mers.unique.dedup.bam SAMstats-L509_1ug.2x36mers.unique.dedup -bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes ~/programs/samtools-0.1.18/samtools -paired &
python ~/code/SAMstats.py L510_4ug.2x36mers.unique.dedup.bam SAMstats-L510_4ug.2x36mers.unique.dedup -bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes ~/programs/samtools-0.1.18/samtools -paired &
python ~/code/makewigglefromBAM-NH.py --- L507_100ng.2x36mers.unique.dedup.bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes L507_100ng.2x36mers.unique.dedup.wig -notitle -uniqueBAM -RPM &
python ~/code/makewigglefromBAM-NH.py --- L508_400ng.2x36mers.unique.dedup.bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes L508_400ng.2x36mers.unique.dedup.wig -notitle -uniqueBAM -RPM &
python ~/code/makewigglefromBAM-NH.py --- L509_1ug.2x36mers.unique.dedup.bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes L509_1ug.2x36mers.unique.dedup.wig -notitle -uniqueBAM -RPM &
python ~/code/makewigglefromBAM-NH.py --- L510_4ug.2x36mers.unique.dedup.bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes L510_4ug.2x36mers.unique.dedup.wig -notitle -uniqueBAM -RPM &
python ~/code/make5primeWigglefromBAM-NH.py --- L507_100ng.2x36mers.unique.dedup.bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes L507_100ng.2x36mers.unique.dedup.5p.wig -notitle -uniqueBAM -RPM &
python ~/code/make5primeWigglefromBAM-NH.py --- L508_400ng.2x36mers.unique.dedup.bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes L508_400ng.2x36mers.unique.dedup.5p.wig -notitle -uniqueBAM -RPM &
python ~/code/make5primeWigglefromBAM-NH.py --- L509_1ug.2x36mers.unique.dedup.bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes L509_1ug.2x36mers.unique.dedup.5p.wig -notitle -uniqueBAM -RPM &
python ~/code/make5primeWigglefromBAM-NH.py --- L510_4ug.2x36mers.unique.dedup.bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes L510_4ug.2x36mers.unique.dedup.5p.wig -notitle -uniqueBAM -RPM &
python ~/code/PEInsertDistFromBAM.py L507_100ng.2x36mers.unique.dedup.bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes L507_100ng.2x36mers.unique.dedup.InsLen -uniqueBAM
python ~/code/PEInsertDistFromBAM.py L508_400ng.2x36mers.unique.dedup.bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes L508_400ng.2x36mers.unique.dedup.InsLen -uniqueBAM
python ~/code/PEInsertDistFromBAM.py L509_1ug.2x36mers.unique.dedup.bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes L509_1ug.2x36mers.unique.dedup.InsLen -uniqueBAM
python ~/code/PEInsertDistFromBAM.py L510_4ug.2x36mers.unique.dedup.bam ~/genomes/Archaea/Euryarchaeota/Haloferax_volcanii_DS2_uid46845/all.chrom.sizes L510_4ug.2x36mers.unique.dedup.InsLen -uniqueBAM