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net-seq-pipeline/runNetSeqPipe.netPipe
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#!/usr/bin/env bash | |
# version v2: Annkatrin Bressin, Martyna Gajos | |
# script to run NetSeqPipeline | |
# provide parameters for the analysis in the files: parameter_template.in and parameter_dependencies.in | |
source parameter_template.in | |
source parameter_dependencies.in | |
mkdir -p $pathToOutputFiles | |
bash $NetSeqApp -o $pathToOutputFiles -id $sampleID -f $files -c $compression -r $reference -si $starIndex -sa $starApp -st $samtools -bt $bedtools -p $parametersSTAR | |