#!/bin/bash
PATH=/data/results/tools/bedtools/bedtools2/bin:$PATH; export PATH
#Sampling to smallest library containing11661275 reads
echo BSC1-D.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh BSC1-D.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.783047
echo BSC1r-D.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh BSC1r-D.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 1
echo BSC2-S.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh BSC2-S.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.831609
echo BSC3-G.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh BSC3-G.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.817346
echo BSC4-I.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh BSC4-I.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.396603
echo BSC4r-I.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh BSC4r-I.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.549231