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Progenomics v0.3.0
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@SWittouck SWittouck released this 29 Oct 07:40
· 109 commits to master since this release
v0.3.0
0acfce3

Progenomics now has its own builtin pangenome strategies!

  • You can still set the pangenome inference strategy with the -d commandline option.
  • The new default strategy, called "FH", is very fast in comparison to existing tools such as OrthoFinder or SonicParanoid. In addition, it scales more or less linearly with the number of input genomes.
  • A variant of the FH strategy, called "H", is not scalable but is even faster on relatively small datasets (~ 60 prokaryotes genomes or less).
  • You can still use OrthoFinder for pangenome inference by setting the strategy to "O-B" (for OrthoFinder with BLAST) or "O-D" (for OrthoFinder with DIAMOND).
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