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@erinyoung erinyoung released this 04 Jun 22:24
· 1136 commits to master since this release
1.20210604
fdf0341
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Learn about vigilant mode.

Not any major changes:

  • fixes error in pangolin results column
  • adds samtools depth to count bases covered by 10X according to samtools
  • moves samtools plot ampliconstats to true by default
  • moves pangolin, vadr, and nextclade to better parallelization
  • uses collectFile() to combine results into one file for seqyclean, vadr, pangolin, and nextclade
  • conforms example config file to more of a standard format
  • removes 'StageInMode' for each process for better ease of configuration

Does not tackles moving from pangolin v2 to v3

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