v2.1.3

What's Changed

• Update new MHC info from IMGT by @yutanagano in #77

Full Changelog: v2.1.2...v2.1.3

v2.1.2

What's Changed

• Update usage page on the docs by @yutanagano in #69
• Link to original publication from docs and README by @yutanagano in #71
• Migrate to pyproject toml by @yutanagano in #74
• Pull updated data from IMGT by @yutanagano in #75
• Bump version number by @yutanagano in #76

Full Changelog: v2.1.1...v2.1.2

v2.1.1

This is a patch to fix a broken link on the PyPI README page.

v2.1.0

This is a minor version upgrade which brings a few new goodies:

• Improved functionality of the tr.get_aa_sequence function:
  • Added support for Mus musculus
  • Added support for diversity and joining region TR genes
• A new pretty logo!
• Better metadata linking the documentation page, github page and PyPI page together more closely

What's Changed

• Add logo by @yutanagano in #62
• Addition of project and download urls to setup.py by @yutanagano in #63
• Improve tr module by @yutanagano in #64
• Minor update to v2.1.0 by @yutanagano in #65

Full Changelog: v2.0.2...v2.1.0

v2.0.2

What's Changed

• Improved standardization warnings that don't compare the input string and best attempted fix if they are the same (thank you @andim for the suggestion!)
• Updated TR/MH allele data
• Updated documentation page and README with quality of life improvements

• Patch 2.0.2 by @yutanagano in #55
• Update github workflows to work with new Node by @yutanagano in #56

Full Changelog: v2.0.1...v2.0.2

Release 2.0.1

This is a minor version update with updated TR/MH reference data.

What's Changed

• Updated TR/MH lists by @yutanagano in #50
• Update to patch 2.0.1 by @yutanagano in #51
• Update to patch 2.0.1 by @yutanagano in #52

Full Changelog: v2.0.0...v2.0.1

Release 2.0.0

Overview of changes in version 2

Version 2 of tidytcells comes with several breaking changes:

• Renaming of submodules (this was done in order to make the software consistently IMGT-compliant)
  • The tcr submodule is now tr
  • The mhc submodule is now mh
• Deprecations of functions
  • tidytcells.mh.classify is now deprecated in favour of tidytcells.mh.get_class
• Deprecation of function parameters
  • The legacy parameter gene_name is now deprecated in favour of gene in the following functions:
    • tidytcells.mh.get_chain
    • tidytcells.mh.get_class
    • tidytcells.mh.standardize
    • tidytcells.tr.standardize
  • The parameter contains is now deprecated in favour of contains_pattern in the following functions:
    • tidytcells.mh.query
    • tidytcells.tr.query

What's Changed

• Develop by @yutanagano in #33
• Update function docstrings to reflect on_fail setting by @yutanagano in #36
• Develop by @yutanagano in #39
• Make cleaner code by @yutanagano in #41
• Update to version 2.0.0 by @yutanagano in #42

Full Changelog: v1.8.4...v2.0.0

Release 1.8.6

Fixed bug in tcr.query where specifying both functionality as "NF" and precision as "gene" caused an error.

Release 1.8.5

Improve warning messages in aa and junction submodules.

Release 1.8.4

First GitHub release.

Please refer to the documentation page for more information on the software.