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preparing for release
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Felipe da Veiga Leprevost committed Dec 2, 2022
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- Added new flag `--removecontam` to the report command to remove contaminants from the reports
- Added a new combined_psm report to abacus (beta)


### Changed
- Updated the TMT-Integrator to match with the version v4.0.0
- Updated the pickedFDR filter
- The pipeline command now accepts annotation files with prefixes
- Updated PTMProphet to the latest release
- 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

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