#!/bin/bash
PATH=/data/results/tools/bedtools/bedtools2/bin:$PATH; export PATH
#Sampling to smallest library containing13149080 reads
ln -s . mm10
echo ITC248-E15.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC248-E15.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.528304
echo ITC249-E151.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC249-E151.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.641718
echo ITC250-E152.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC250-E152.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.747181
echo ITC251-E181.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC251-E181.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.946009
echo ITC252-E182.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC252-E182.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.674813
echo ITC253-P01.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC253-P01.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.991953
echo ITC254-P02.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC254-P02.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.903326
echo ITC255-P03.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC255-P03.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 0.852809
echo ITC256-P04.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC256-P04.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai 1