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Ran 03 Jun 2026 01:53AM UTC

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Committed 03 Jun 2026 01:50AM UTC coverage: 80.851% (+0.02%) from 80.834%

Job # 26858867000.1

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push

github

Committed by

web-flow

Commit Message

Curated signature guidance + RNA reproducibility map (#145) (#156)

The signature set itself landed across #141/#142/#144; this encodes the
honest map of what each signature is good for, so users don't reach for RNA
where the sequence (Pgen/Ppost, #143) is the right tool.

- SIGNATURE_GUIDANCE: queryable per-signature usage map (tier in
  recommended/situational/wrong_biology, use_for, reproducibility note).
  Differentiated + AcuteActivation are the donor-reproducible axes;
  TumorReactive is flagged wrong-biology for short PBMC culture.
- recommended_signatures() helper + RNA_REPRODUCIBILITY_NOTE constant
  (RNA does NOT reproducibly recover the precursor/cross-reactivity axis;
  use sequence features; don't overfit signatures on n=2 donors).
- docs/reproducibility_map.md + nav.

Bump 2.25.0.

Coverage Stats

8166 of 10100 relevant lines covered (80.85%)

0.81 hits per line

pirl-unc / tcrsift / 26858867000 / 1
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main: 82%

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Source Files on job python-3.12 - 26858867000.1

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82%
main: 82%

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