#!/bin/bash
PATH=/data/results/tools/bedtools/bedtools2/bin:$PATH; export PATH
#Sampling to smallest library containing6032069 reads
ln -s . hg38
echo PHC51-ChIRP-Input.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh PHC51-ChIRP-Input.bam /data/results/reference/hsa/GRCh38/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa.fai 1
echo PHC53-ChIRP-EVEN.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh PHC53-ChIRP-EVEN.bam /data/results/reference/hsa/GRCh38/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa.fai 0.671689
echo PHC54-ChIRP-LacZ.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh PHC54-ChIRP-LacZ.bam /data/results/reference/hsa/GRCh38/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa.fai 0.783489
echo PHC55-MCF-Input.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh PHC55-MCF-Input.bam /data/results/reference/hsa/GRCh38/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa.fai 0.719932
echo PHC56-MCF-Acl2.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh PHC56-MCF-Acl2.bam /data/results/reference/hsa/GRCh38/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa.fai 0.75132
echo PHC57-MCF-bcat.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh PHC57-MCF-bcat.bam /data/results/reference/hsa/GRCh38/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa.fai 0.703284
echo PHC58-MCF-TCF4.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh PHC58-MCF-TCF4.bam /data/results/reference/hsa/GRCh38/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa.fai 0.689251