#!/bin/bash
PATH=/data/results/tools/bedtools/bedtools2/bin:$PATH; export PATH
#Sampling to smallest library containing7147062 reads
ln -s . hg19
echo ED3R1_K471-wt1.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh ED3R1_K471-wt1.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 1
echo ED3R8_K517-tg4.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh ED3R8_K517-tg4.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 0.83214
echo ED3R2_K513-wt2.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh ED3R2_K513-wt2.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 0.946748
echo ED3R3_K514-wt3.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh ED3R3_K514-wt3.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 0.87448
echo ED3R4_K518-wt4.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh ED3R4_K518-wt4.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 0.758178
echo ED3R5_K473-tg1.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh ED3R5_K473-tg1.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 0.961456
echo ED3R6_K483-tg2.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh ED3R6_K483-tg2.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 0.59111
echo ED3R7_K485-tg3.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh ED3R7_K485-tg3.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 1