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kevlar-dev / kevlar

Reference-free variant discovery in large eukaryotic genomes
https://kevlar.readthedocs.io
MIT License
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Ambiguous contig threshold #361

Closed standage closed 5 years ago

standage commented 5 years ago

This update adds an --ambig-thresh flag to kevlar simlike to discard contigs with too many ambiguous variant calls (default: 10 or more). Closes #360.

codecov-io commented 5 years ago

Codecov Report

Merging #361 into master will increase coverage by <.01%. The diff coverage is 100%.

Impacted file tree graph

@@            Coverage Diff             @@
##           master     #361      +/-   ##
==========================================
+ Coverage   96.79%   96.79%   +<.01%     
==========================================
  Files          48       48              
  Lines        2895     2899       +4     
  Branches      536      537       +1     
==========================================
+ Hits         2802     2806       +4     
  Misses         58       58              
  Partials       35       35
Impacted Files Coverage Δ
kevlar/simlike.py 98.66% <100%> (+0.01%) :arrow_up:
kevlar/cli/simlike.py 100% <100%> (ø) :arrow_up:
kevlar/vcf.py 93.33% <100%> (+0.02%) :arrow_up:

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