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Releases: openvax/mhcflurry

Version 2.1.1

15 Mar 17:43
@timodonnell timodonnell
v2.1.1
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Version 2.1.1 Latest
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Minor bugfix release:

  • Pin tensorflow version, as we do not support tensorflow 2.16.1 currently (#234)
  • Fix tests so they run with pytest version 8
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Version 2.1.0

18 Oct 21:30
@timodonnell timodonnell
v2.1.0
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Version 2.1.0

This maintenance release fixes various minor issues. The models are not changed, and predictions should be identical to previous versions.

The main changes are:

  1. Tensorflow dependency updated to 'tensorflow>=2.12.0'. We no longer run TF in version 1 compatibility mode.
  2. Changed mhcflurry-predict-scan to be more intuitive. See #219
  3. Make unit tests deterministic by correctly setting the random seed (we were setting it incorrectly before)
  4. Use yaml.safe_load instead of yaml.load (fixes #215)
  5. Switch to github actions for CI/CD instead of travis
  6. Update Dockerfile to work with recent docker versions
  7. Various small fixes to eliminate warnings

Thanks to @walid0925 for his helpful contributions on this release!

Contributors

walid0925
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Version 2.0.6

08 Jun 16:14
@timodonnell timodonnell
v2.0.6b
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Version 2.0.6

Minor fixes

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Version 2.0.4

24 Sep 17:09
@timodonnell timodonnell
2.0.4
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Version 2.0.4

Bugfix release

Fixes #195 and a few additional minor issues

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pre-2.1

14 Oct 20:52
@timodonnell timodonnell
pre-2.1
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pre-2.1 Pre-release
Pre-release

Not ready for use.

Assets 11

2.0.1

20 Jul 14:55
@timodonnell timodonnell
v2.0.1
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2.0.1

Fix the typo that caused #172

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v2.0.0

13 Jul 23:14
@timodonnell timodonnell
v2.0.0
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v2.0.0

Calling this version 2.0.0 to recognize that MHCflurry has evolved quite a bit in the last year. This release itself is not a major departure from the 1.6.0 version, however.

Version 2.0 introduces new models (BA/AP/PS). These follow the same overall design as in 1.6.0 but incorporate updated training data and some small tweaks:

  • BA predictor: MS hits are assigned < 100 nM affinity instead of < 50 nM for training
  • AP predictor: flanking window size decreased to 5 amino acids per flank from 15. Not seeing an accuracy decrease and it makes the models faster.

The code has been ported to tensorflow 2.0. Users will need to upgrade to a recent tensorflow to use MHCflurry.

Other changes:

  • Support for percentile ranks for PS predictions
  • Revamped Docker support
  • Small fixes and docs updates
Assets 2

pre-2.0

16 Jun 12:28
@timodonnell timodonnell
pre-2.0
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pre-2.0 Pre-release
Pre-release

Models and data for the upcoming 2.0 release.

Assets 23

v1.6.1

01 May 20:34
@timodonnell timodonnell
1.6.1
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v1.6.1 
Merge pull request #163 from openvax/1.6.1

1.6.1
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pre-1.7.0

27 Apr 18:52
@timodonnell timodonnell
pre-1.7.0
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pre-1.7.0 Pre-release
Pre-release

Updated datasets for an eventual 1.7.0 release.

Assets 10