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SNPio v1.1.3
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@btmartin721 btmartin721 released this 27 Oct 18:08
· 14 commits to master since this release
v1.1.3
4697e7b

Version 1.1.3 (2024-10-25)

Features

  • Updated tree parsing functionality and added it to the TreeParser class in the analysis/tree_parser.py module to conform to refactor, and added new functionality to parse, modify, draw, and save Newick and NEXUS tree files.
  • siterates and qmatrix files now dynamically determine if they are in IQ-TREE format or if they are just in a simple tab-delimited or comma-delimited format.
  • site_rates and qmat are now read in as pandas DataFrames with less complex logic.
  • Added unit test for tree parsing.
  • Added integration test for tree parsing.
  • Added documentation for tree parsing.

Bug Fixes

  • Fixed bug where the PhylipReader and StructureReader classes did not have the verbose and debug attributes.

Changes

  • q property is now called qmat for clarity and easier searching in files.
  • Removed redundant siterates_iqtree and qmatrix_iqtree arguments attributes from the GenotypeData, VCFReader, PhylipReader, StructureReader, and TreeParser classes.
  • Added error handling for tree parsing.
  • Added error handling for siterates and qmatrix files.
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