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YAP
  • Before Start
  • Installation
  • TECH BACKGROUND
    • Barcoding
    • Technology References
    • File Formats
  • Mapping Pipeline
  • Prepare
    • Prepare PlateInfo & bcl2fastq SampleSheet
    • Prepare Mapping Config
      • Prepare Reference Files
  • Demultiplex
  • Mapping
    • Mapping Via Qsub
    • Mapping Via Sbatch
    • Mapping Locally
  • Mapping Form Cell-Level FASTQ Files
  • Summary
  • Mapping Metrics
    • Key Mapping Metrics
    • All Mapping Metrics
  • Generate MCDS
  • Pseudo-bulk
    • Methylome Pseudo-bulk
  • Other
    • FAQ
    • Changelog
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Mapping Metrics

Columns in the MappingSummary.csv.gz

PreviousSummaryNextKey Mapping Metrics

Last updated 4 years ago

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YAP gathers many mapping metrics from each step of the pipeline.

To quickly evaluate the cell and library quality, you may start with a few key mapping metrics and recommended cutoffs:

And I also provided the annotation of all mapping matrics in the MappingSummary.csv.gz table.

Key Mapping Metrics
All Mapping Metrics