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@raufs raufs released this 22 Oct 19:40
· 23 commits to main since this release
v1.50
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Learn about vigilant mode.
  • Change-up handling of genes which were placed in coarse ortholog groups by OrthoFinder but are dropped off in the more resolved hierarchical ortholog groups. Instead of grouping the remaining genes into a bin identified by their original coarse (OG) names. Based on davidemms/OrthoFinder#288 , lsaBGC (lsaBGC-Ready specifically) will now parse the genes listed per genome in the Phylogenetically_Misplaced_Genes/ directory to and match them to their closest HOGs based on the relations with other genes reported in the Putative_Xenologs/ directory. The remaining "misplaced" genes will just be treated as singleton ortholog groups.
  • Introduce Panaroo (🐀 ) as an option for determining ortholog groups - most appropriate for single bacterial species or lineages! 🎊
  • Sonicparanoid removed from conda-based installation and now only available via Docker
  • Update docker images to install older setuptools to avoid deprecation warning :/

What's Changed

Full Changelog: v1.40.0...v1.50

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raufs
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