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Version 0.3.1

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@samnooij samnooij released this 22 Apr 14:37
v0.3.1
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samnooij Sam Nooij
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Learn about vigilant mode.

What's changed

The screening method for CRISPR arrays is now more sensitive and the spacer clustering method has been revised to make it faster, simpler and provide more comprehensive and useful output.

Feature updates

  • Increase CRISPR screening sensitivity by widening the possible sizes for spacers and repeats, and allowing arrays with <3 repeats (the default in CCTyper and CRISPRidentify).
    • CCTyper's options now match the more sensitive defaults from CRISPRidentify (--minRL 21 --maxRL 55 --minSL 18 --maxSL 78)
  • Clustering spacers now uses a combination of sort | uniq -c and cd-hit-est to get the best of both worlds: faster clustering and simpler parsing of the most common, longest and shortest spacer per cluster (#25)
  • The output of CRISPR array tables and spacer tables and fasta files has been renamed to clarify what is the 'primary' output and what is 'final'
  • Spacer output tables are also automatically parsed to use with visualisation tools CRISPRdiff and SpacerPlacer (#32)

Full Changelog: v0.3...v0.3.1

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