Public Repository

Last pushed: 6 months ago
Short Description
QC Metrics Parser that parsers FastQC, Samtools, Picard and GATK Outputs
Full Description

To run:
python /opt/code/QCMetricsParser/parserwrapper.py -h

I/P Files needed:

  1. FASTQC Data
  2. Samtools Flagstat
  3. Picard Alignment Summary Metrics
  4. Picard GC Bias Summary Metrics
  5. Picard Mean Quality by Cycle
  6. Picard Quality Score Distribution
  7. Picard Insert Size Metrics
  8. GATK Depth of Coverage sample interval summary
  9. sample Id
  10. run Id
  11. O/P File Tag

O/P:
SampleId_RunId_OPFileTag.json

Docker Pull Command
Owner
lalithav

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