rubrawgspipeline

Follow the link or go to the run.script for information on executing the pipeline.

Name		Name	Last commit message	Last commit date
Latest commit History 2 Commits
AnnotateVar		AnnotateVar
FastqtoGz.sh		FastqtoGz.sh
FilterHQVar		FilterHQVar
GenomeAnalysisTK		GenomeAnalysisTK
MarkDuplicates		MarkDuplicates
PicardMerge		PicardMerge
PicardSamToFastq		PicardSamToFastq
README.md		README.md
RunVarscan		RunVarscan
RunVarscanFilter		RunVarscanFilter
SamToFastq.sh		SamToFastq.sh
SnpEff		SnpEff
SortSam		SortSam
count_flagstat_exome.py		count_flagstat_exome.py
count_flagstat_wgs.py		count_flagstat_wgs.py
flowchart.svg		flowchart.svg
input_fastq.py		input_fastq.py
input_fastq.pyc		input_fastq.pyc
pipeline.py		pipeline.py
pipeline_stages_config.py		pipeline_stages_config.py
renamefastq.py		renamefastq.py
split_compound_indels.py		split_compound_indels.py
vcftools_prepare.sh		vcftools_prepare.sh

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