Nucleo Quality Control
  • 🌸Nucleo Quality Control
    • Workflow description
    • Requirements
    • Installation and Usage
    • Workflow inputs
      • Input for nucleo_qc.cwl
      • Input for nucleo_aggregate_visualize.cwl
    • Workflow outputs
    • ☀️Interpretation - MultiQC
      • Summary QC metrics
      • Coverage vs GC content
      • Capture Metrics
      • Insert Size
      • Target coverage distribution
      • Duplex Metrics
        • Duplex family sizes
        • Simplex family sizes
        • Duplex yield metrics
      • Mean Base Quality
      • Duplex Noise Metrics
      • Contamination
        • Hotspot in Normals
        • Major contamination
        • Minor contamination
        • Contributing sites
      • Fingerprinting
      • QC thresholds
  • 🇬🇷Interpretation - Athena Coverage report
    • Installation and running
    • Interpretation coverage report
      • Report details
      • Summary
      • Exons with <100% coverage at 500x
      • Per gene coverage summary
      • Per exon coverage
      • Coverage of Known Variants
      • Coverage per chromosome
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  1. Nucleo Quality Control
  2. Interpretation - MultiQC
  3. Contamination

Minor contamination

PreviousMajor contaminationNextContributing sites

Last updated 2 years ago

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Minor contamination is calculated separately for collapsed and duplex BAMs. Minor contamination is calculated using just the homozygous sites.

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