#!/bin/bash
PATH=/data/results/tools/bedtools/bedtools2/bin:$PATH; export PATH
#Sampling to smallest library containing14704621 reads
ln -s . hg38
echo ITC268-Mar5.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC268-Mar5.bam /data/results/reference/hsa/GRCh38/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa.fai 1
echo ITC269-Mar6.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC269-Mar6.bam /data/results/reference/hsa/GRCh38/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa.fai 0.918488
echo ITC270-Mar7.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC270-Mar7.bam /data/results/reference/hsa/GRCh38/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa.fai 0.856426
echo ITC271-Mar8.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC271-Mar8.bam /data/results/reference/hsa/GRCh38/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa.fai 0.850577
echo ITC272-Mar-Input7.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC272-Mar-Input7.bam /data/results/reference/hsa/GRCh38/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa.fai 0.713455
echo ITC273-Mar-Input8.bam
/data/results/tools/proton/tophat2unstranded-sampled-bigwig1.sh ITC273-Mar-Input8.bam /data/results/reference/hsa/GRCh38/Homo_sapiens/NCBI/GRCh38/Sequence/WholeGenomeFasta/genome.fa.fai 0.591832