diff --git a/CHANGELOG.md b/CHANGELOG.md index 0a8eab3..263e411 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -15,6 +15,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 ### Changed - ♻️ `stats.qvalues`: Set the **regular target–decoy formula** explicitly in Pyteomics when `remove_decoy=False` and apply the **+1 correction** (probability that the first excluded decoy out-scores the threshold PSM). This produces less overly conservative q-values (e.g., on `example_files/msms.txt`). (#128) +- ♻️ `io.pepxml`: Refactor spectrum naming logic to prefer `spectrumNativeID` when available - 🏷️ **Typing**: Adopted full **MyPy** typing across the codebase. (#125) - 👷 **CI**: Replaced file-hash–based tests for `io.idxml` with unit tests; added formatting checks. (#125)