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MHCflurry 2.3.8

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@iskandr iskandr released this 30 Sep 14:48
· 5 commits to master since this release
2.3.8
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Learn about vigilant mode.

MHCflurry 2.3.8

This maintenance release preserves training provenance and makes evaluation
overlap claims more precise. Default weights remain 2.3.0; frozen-weight
predictions are unchanged.

  • New affinity curation preserves study/sample/assay identities, source hashes
    and raw row references, including every contributor to a deduplicated row.
  • New holdout policies exclude known whole source samples or studies in addition
    to peptide–MHC pairs. Legacy policies retain their original scope.
  • mhcflurry train release-holdout audit-samples audits all compared models'
    components and pretraining/training/development/selection sources, resolves
    explicit specimen aliases, and exports one shared cohort with hashes/counts.
  • Missing historical or external lineage remains unresolved. Passing the old
    peptide/sample-ID checks is never presented as complete sample-disjoint proof.

This release does not retrain or republish weights and does not retrospectively
certify historical sample separation. See issue #444 for that remaining evidence
limitation and #469 for the planned processing-quality investigation.

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