#!/bin/bash
PATH=/data/results/tools/bedtools/bedtools2/bin:$PATH; export PATH
#Sampling to smallest library containing44051 reads
ln -s . mm10
echo ITMu1_wtDP.bam
/data/results/tools/proton/tophat2unstranded-bigwig1.sh ITMu1_wtDP.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai
echo ITMu2_BC16koDP.bam
/data/results/tools/proton/tophat2unstranded-bigwig1.sh ITMu2_BC16koDP.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai
echo ITRC1a_wtBiotin.bam
/data/results/tools/proton/tophat2unstranded-bigwig1.sh ITRC1a_wtBiotin.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai
echo ITRC2a_SET8koBiotin.bam
/data/results/tools/proton/tophat2unstranded-bigwig1.sh ITRC2a_SET8koBiotin.bam /data/results/reference/mmu/mm10/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa.fai