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PPanGGOLiN release 1.0.0
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@axbazin axbazin released this 07 Nov 12:17
· 1911 commits to master since this release
1.0.0
003c4bf

New features:

  • Can choose the number of partitions in the 'workflow' subcommand
  • Can customize identity and coverage thresholds in the 'cluster' subcommand
  • Added 4 new possible outputs :
    - proteic fasta for representative sequences of the gene families
    - nucleic fasta for representative sequences of the gene families
    - nucleic fasta of all the CDS
    - a list containing the gene family IDs and the gene IDs alike the .tsv file format of MMseqs2
  • Added unit tests for the different classes thank to @sletort

bug fixes :

  • Do not take into account the Markov Random Field if its criteria reaches infinity (problem of large dimensionality in statistics, PPanGGOLiN should crash less on VERY fragmented datasets.)
  • now properly reading .gbff/.gbk files
  • Improved compatibility for the .gexf files
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