0.11.0

Changes

• Features/dl omix removal (#369) @cemilcansaylan
• updated Prosit-XL reference (#343) @mostafakalhor

🚀 Features

• feature/refactoring ci workflows and cleanup (#374) @omsh
• Features/multifrag pipeline (#370) @cemilcansaylan

🐛 Bug Fixes

• Fix/docs updates (#377) @omsh

🧰 Maintenance

• feature/refactoring ci workflows and cleanup (#374) @omsh
• Added missing plotting functions to ReadTheDocs (#371) @victorgiurcoiu

Full Changelog: 0.10.0...v0.11.0

0.10.0 🌈

Changes

🚀 Features

• Feature/xl noncleavable (#331) @mostafakalhor
• Feature/support python 3.12 (#337) @picciama

🐛 Bug Fixes

• Fix/docker to run with python 3.11 (#336) @picciama

🧰 Maintenance

• Feature/xl noncleavable (#331) @mostafakalhor

📦 Dependencies

• [DEPENDABOT]: Bump networkx from 2.8.8 to 3.4.2 (#332) @dependabot[bot]
• [DEPENDABOT]: Bump uvicorn from 0.34.2 to 0.34.3 (#334) @dependabot[bot]
• [DEPENDABOT]: Bump typing-extensions from 4.13.2 to 4.14.0 (#333) @dependabot[bot]
• [DEPENDABOT]: Bump koinapy from 0.0.7 to 0.0.10 (#327) @dependabot[bot]
• [DEPENDABOT]: Bump joblib from 1.5.0 to 1.5.1 (#329) @dependabot[bot]
• [DEPENDABOT]: Bump grpcio from 1.67.1 to 1.72.1 (#330) @dependabot[bot]

Full Changelog: 0.9.0...0.10.0

0.9.0 🌈

Changes

• document custom modifications and all class methods for predictions and spectra (#302) @picciama
• Update Prosit-timsTOF reference (#299) @bittremieux
• dropped python 3.9 support, added support for python <=3.11

🚀 Features

• Feature/generate mirror plots (#315) @victorgiurcoiu
• incorporate OpenMS support (#325) @picciama

🐛 Bug Fixes

• Update dependencies in Dockerfile (#323) @MatthewThe

📦 Dependencies

• [DEPENDABOT]: Bump filelock from 3.16.1 to 3.18.0 (#318) @dependabot[bot]
• [DEPENDABOT]: Bump array-api-compat from 1.7.1 to 1.11.2 (#320) @dependabot[bot]
• [DEPENDABOT]: Bump pypa/gh-action-pypi-publish from 1.12.2 to 1.12.4 (#322) @dependabot[bot]
• [DEPENDABOT]: Bump codecov/codecov-action from 5.0.2 to 5.4.3 (#324) @dependabot[bot]
• [DEPENDABOT]: Bump crazy-max/ghaction-github-labeler from 5.0.0 to 5.3.0 (#317) @dependabot[bot]
• [DEPENDABOT]: Bump actions/cache from 4.1.2 to 4.2.0 (#304) @dependabot[bot]
• [DEPENDABOT]: Bump actions/cache from 4.0.2 to 4.1.2 (#292) @dependabot[bot]
• [DEPENDABOT]: Bump pypa/gh-action-pypi-publish from 1.9.0 to 1.12.2 (#297) @dependabot[bot]
• [DEPENDABOT]: Bump codecov/codecov-action from 4.5.0 to 5.0.2 (#298) @dependabot[bot]

New Contributors

• @bittremieux made their first contribution in #299

Full Changelog: 0.8.3...0.9.0

0.8.3 🌈

Changes

🚀 Features

• Feature/xl (#291) @mostafakalhor

Full Changelog: 0.8.2...0.8.3

0.8.2 🌈

Changes

🐛 Bug Fixes

• Patch/fix documentation (#285) @WassimG

Full Changelog: 0.8.1...0.8.2

0.8.1 🌈

Changes

🚀 Features

• Feature/cit pipeline tutorial (#282) @WassimG

Full Changelog: 0.8.0...0.8.1

0.8.0 🌈

Changes

• removed dlomix temporarily till stable release (#281) @picciama
• Add cit pipeline to the release (#276) @WassimG
• added koinapy and extend superclass (#257) @picciama
• Added example code for all api functions (#248) @arne-vdb

🚀 Features

• Feature: DLomix integration (#250) @JSchlensok
• added support for MSAmanda (#162) @picciama
• Integration of picked-group-FDR in Oktoberfest (#180) @ayla-s
• use custom columns as input features for percolator (#249) @arne-vdb
• Feature/custom modifications (#242) @FaBasso
• Feature/add new iontypes (#251) @pfeifferpi
• Features/ptm pipeline (#268) @WassimG

🐛 Bug Fixes

• Fix dlomix url to be allowed by pypi (#278) @WassimG
• Patch/ptm model support (#256) @LLautenbacher

Full Changelog: 0.7.0...0.8.0

0.7.0 🌈

Changes

• updated config/prediction docs and added news (#226) @picciama
• Update multimodel_support (#213) @arne-vdb

🚀 Features

• Feature/peptide list for speclib (#243) @picciama
• Feature/digest nr oxidations arg (#217) @victorgiurcoiu
• chore/use_anndata (#203) @arne-vdb
• Feature/api multi rawfile support (#212) @picciama

📦 Dependencies

• [DEPENDABOT]: Bump tritonclient from 2.44.0 to 2.47.0 (#237) @dependabot
• [DEPENDABOT]: Bump pypa/gh-action-pypi-publish from 1.8.14 to 1.9.0 (#235) @dependabot
• [DEPENDABOT]: Bump codecov/codecov-action from 4.4.1 to 4.5.0 (#234) @dependabot
• [DEPENDABOT]: Bump xdoctest from 1.1.3 to 1.1.5 (#232) @dependabot
• [DEPENDABOT]: Bump peaceiris/actions-gh-pages from 3 to 4 (#223) @dependabot
• [DEPENDABOT]: Bump codecov/codecov-action from 4.3.1 to 4.4.1 (#222) @dependabot
• [DEPENDABOT]: Bump pypa/gh-action-pypi-publish from 1.8.11 to 1.8.14 (#221) @dependabot
• [DEPENDABOT]: Bump mokapot from 0.9.1 to 0.10.0 (#139) @dependabot
• [DEPENDABOT]: Bump coverage from 7.5.0 to 7.5.1 (#215) @dependabot
• [DEPENDABOT]: Bump seaborn from 0.12.2 to 0.13.2 (#194) @dependabot
• [DEPENDABOT]: Bump codecov/codecov-action from 4.3.0 to 4.3.1 (#214) @dependabot
• [DEPENDABOT]: Bump actions/download-artifact from 3 to 4 (#210) @dependabot
• [DEPENDABOT]: Bump actions/upload-artifact from 3 to 4 (#168) @dependabot
• [DEPENDABOT]: Bump actions/cache from 3.3.2 to 4.0.2 (#209) @dependabot
• [DEPENDABOT]: Bump tritonclient from 2.36.0 to 2.44.0 (#208) @dependabot
• [DEPENDABOT]: Bump release-drafter/release-drafter from 5 to 6 (#206) @dependabot
• [DEPENDABOT]: Bump codecov/codecov-action from 3.1.4 to 4.3.0 (#207) @dependabot
• [DEPENDABOT]: Bump actions/setup-python from 4 to 5 (#165) @dependabot
• [DEPENDABOT]: Bump pypa/gh-action-pypi-publish from 1.8.10 to 1.8.11 (#160) @dependabot

Full Changelog: 0.6.2...0.7.0

0.6.2 🌈

Changes

• InPPO Lite 2024 workshop notebook (#202) @arminsl

🐛 Bug Fixes

• Fix/mokapot csv read (#204) @picciama

0.6.1 🌈

🐛 Bug Fixes

• Fix/check pred step (#200) @picciama