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preparing for release
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Felipe da Veiga Leprevost committed Dec 2, 2022
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5 changes: 2 additions & 3 deletions Changelog
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### Changed
- Updated the TMT-Integrator to match with the version v4.0.0
- Updated the pickedFDR filter
- Replaced the cRAP contaminant database with the Universal Protein Contaminants from Frankenfield et al. (10.1021/acs.jproteome.2c00145)
- The pipeline command now accepts annotation files with prefixes
- Updated PTMProphet to the latest release
- Updated the database fecth with the new UniProt API (The new API is still unstable, people might experience hicups with certain cases, specially non-model organisms without reviewed sequences)
- Updated the database fetch with the new UniProt API (The new API is still unstable, people might experience hicups with certain cases, specially non-model organisms without reviewed sequences)

### Fixed
- Contaminant tags are now added to Human sequences as well
- Several minor fixes and updates
- Added a fix to fix errorrs causes by division-by-zero errors (PR by @chhh)
- Fixed the protein coverage calculations to take into acount all peptides
- Fixed the protein coverage calculations to take into account all peptides
2 changes: 1 addition & 1 deletion README.md
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</p>

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