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Requirements for depth tool

Pjotr Prins edited this page May 23, 2014 · 2 revisions

We intend to expand sambamba to include 'depth' support comparable with bedtools genomecov. I.e.,

  • BED file support
  • Custom read filtering with command-line options for common shortcuts (e.g. --no-duplicates, --min-mapping-quality=30)
  • Reporting stats per position/per window with adjustable size
  • Per sample and all sample histograms