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bio_hansel v1.0.0
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@peterk87 peterk87 released this 30 Nov 21:57
· 244 commits to master since this release
v1.0.0
703b50f
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Learn about vigilant mode.

Added:

  • #14: QC methods for checking for mixed subtypes, intermediate subtypes, too many missing targets, ambiguous subtype result
  • #13: technician friendly format (-S) with sample name, subtype result, QC status and QC messages
  • SubtypingParams to hold QC and subtyping parameters like min k-mer threshold for subtype calling from reads and max missing tiles for QC
  • added qc_status and qc_messages fields to regular summary output
  • tests for QC

Fixed:

  • check if output files exist, don't overwrite unless --force commandline option set

Changes:

  • schemes can have scheme specific subtyping parameters (can add SubtypingParams object to scheme definition)
  • updated tests
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