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Releases: lczech/gappa

gappa v0.8.5

28 Jun 13:02
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Notable Changes

  • Add GLM coefficient output to Placement-Factorization
  • Add Kendall's tau to Edge Correlation
  • Fix issue in Assign command

gappa v0.8.4

28 Apr 06:11
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Notable Changes

  • Fix bug in Edge PCA transformation table, and add more helpful tables and trees
  • Refine CMake OpenMP static linking setup

gappa v0.8.3

30 Nov 07:10
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Notable Changes

  • Add per-sample MSA file output in unchunkify, based on the chunked (hashed) query MSA
  • Improve SVG output by setting proper document boundaries
  • Extend tree output options, in particular for Newick
  • Stability fixes for OpenMP and build setup for MacOS
  • Fix EDPL histogram empty max value edge case #21

gappa v0.8.2

01 Aug 23:08
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Notable Changes

  • Add pendant length filters to filter command

gappa v0.8.1

16 Jan 19:47
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Notable Changes

  • Add clean-tree command
  • Add taxon name cleaning option to taxonomy tree command
  • Fix Newick reader error when reading multiple numeric values of a node

gappa v0.8.0

04 Jan 12:43
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Notable Changes

  • Add filter command
  • Add merge command
  • Add lwr-distribution command and helper script
  • Refactor lwr command into lwr-histogram and lwr-list
  • Add --distant-label option for assign command
  • Rename module random to simulate
  • Refine a lot of documentation and option descriptions
  • Refine automatic thread number guessing to use OpenMP
  • Fix nan issue in KR distance computation

gappa v0.7.1

01 Apr 09:47
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Version bump to fix the version number. It was somehow stuck at v0.6.1

gappa v0.7.0

21 Jan 03:40
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Notable Changes

  • Refactor file output to offer suffixes and gz compression
  • Fix table input separator char option
  • Fix file input gz filtering
  • Fix KR distance normalization

gappa v0.6.1

10 Aug 03:16
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Notable Changes

  • Add support for multi gz file input
  • Add more options to gappa examine assign command
  • Refine documentation
  • Fix several issues and bugs
  • Extend travis test cases

gappa v0.6.0

08 Feb 12:08
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This is the release that accompanies the publication of our application note

Genesis and Gappa: processing, analyzing and visualizing phylogenetic (placement) data.
Lucas Czech, Pierre Barbera, and Alexandros Stamatakis.
Bioinformatics, 2020. https://doi.org/10.1093/bioinformatics/btaa070

which is now the official reference to cite when using genesis and gappa.