#!/bin/bash
PATH=/data/results/tools/bedtools/bedtools2/bin:$PATH; export PATH
#Sampling to smallest library containing2121711 reads
ln -s . hg19
echo MF3R14_OFF4.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh MF3R14_OFF4.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 0.68474
echo MF3R15_3d-3.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh MF3R15_3d-3.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 1
echo MF3R16_3d-4.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh MF3R16_3d-4.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 1
echo MF3R17_6d-3.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh MF3R17_6d-3.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 0.882153
echo MF3R18_6d-4.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh MF3R18_6d-4.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 0.70685
echo MF3R13r_OFF3.bam
/data/results/tools/proton/tophat2stranded-sampled-bigwig2.sh MF3R13r_OFF3.bam /data/results/reference/hg19/Homo_sapiens/UCSC/hg19/Sequence/WholeGenomeFasta/hsa.hg19.genome 0.192287