#!/bin/bash
PATH=/data/results/tools/bedtools/bedtools2/bin:$PATH; export PATH
#Sampling to smallest library containing14766791 reads
echo ITC146-E15-1.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC146-E15-1.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.703507
echo ITC147-E15-2.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC147-E15-2.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 1
echo ITC148-P0-1.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC148-P0-1.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.708148
echo ITC149-P0-2.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC149-P0-2.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 1
echo ITC150-P14-1.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC150-P14-1.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.880187
echo ITC151-P14-2.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC151-P14-2.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.6568
echo ITC152-P60-1.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC152-P60-1.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.828783
echo ITC153-P60-2.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC153-P60-2.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.87287