Releases: MannLabs/alphadia
Releases · MannLabs/alphadia
v1.7.0
What's Changed
- Development by @mschwoer in #199
- Fix uname issue by @mschwoer in #201
- DOCS Improved installation and method section by @GeorgWa in #203
- Add readthedocs link and badge by @mschwoer in #206
- DOCS update readme by @GeorgWa in #210
- release 1.6.2 by @GeorgWa in #204
- CHORE fixed alphabase requirement by @GeorgWa in #193
- FIX fasta for Bruker by @GeorgWa in #213
- Added features to grouping.py and update tutorial notebook to heuristic grouping by @vbrennsteiner in #171
- FIX Pip no cache by @GeorgWa in #220
- FEAT update plotting utils by @GeorgWa in #219
- FEAT logging raw file stats by @GeorgWa in #216
- 140 plot history by @mschwoer in #172
- FEAT Set log level from config by @GeorgWa in #215
- FIX transfer learning bug by @GeorgWa in #218
- FEAT Use parquet files as output by @GeorgWa in #222
- FEAT automatic transfer learning in consensus pipeline by @GeorgWa in #223
- Fix logger issue by @mschwoer in #227
- FEAT transfer learning controls in GUI by @GeorgWa in #226
- CHORE raise alphabase version by @GeorgWa in #228
- Release 1.7.0 by @GeorgWa in #217
Full Changelog: v1.6.2...v1.7.0
Contributors
GeorgWa, mschwoer, and vbrennsteiner
Assets 4
v1.6.2
What's Changed
Breaking changes
New features
Bug fixes
Improvements
- Several improvements of the documentation
Full Changelog: v1.6.1...v1.6.2
Contributors
mschwoer
Assets 4
v1.6.1
Contributors
GeorgWa and mschwoer
Assets 4
v1.6.0
What's Changed
- Release 1.5.5 by @GeorgWa in #116
- DOCS include slurm install instructions by @GeorgWa in #123
- BUG allow empty modification string by @GeorgWa in #121
- FEAT allow to specify custom DL weights by @GeorgWa in #120
- BUG allow space in binary path by @GeorgWa in #119
- FEAT Accumulator for transfer learning by @mo-sameh in #106
- #125 restart cd workflow after hf bug by @GeorgWa in #126
- CHORE updated configuration of directLFQ by @ammarcsj in #128
- CHORE pre-commit hook & code formatting by @GeorgWa in #129
- FIX bump action version by @GeorgWa in #131
- FEAT allow custom fragment types by @GeorgWa in #136
- FEAT improve interaction with file input by @GeorgWa in #134
- FEAT extraction of fragment intensities for transfer learning by @GeorgWa in #133
- Updated Readme on on main by @GeorgWa in #139
- Add docker by @mschwoer in #137
- FEAT small alphadia logo by @GeorgWa in #141
- FEAT DIA transfer learning by @mo-sameh in #130
- FIX file ending matching by @GeorgWa in #148
- CHORE move code to finetuning subpackage by @GeorgWa in #145
- CHORE move calibration to subpackage by @GeorgWa in #147
- 140 automated e2e tests by @mschwoer in #143
- 156 migrate to pyprojectstoml by @mschwoer in #158
- Pip cache and concurrency by @mschwoer in #159
- 140 e2e self hosted by @mschwoer in #150
- #140: run only on labeled PRs by @mschwoer in #163
- FIX numerical stabilty for small intensities by @GeorgWa in #161
- Update ms2 prediction by @mo-sameh in #151
- FIX install instructions by @GeorgWa in #160
- 140 e2e more test cases by @mschwoer in #162
- 169 fixed dependency versions by @mschwoer in #170
- FEAT SILAC & multiplexing support by @GeorgWa in #149
- Pypi project info by @mschwoer in #177
- #174: enable releasing tags by @mschwoer in #179
- #174: enable releasing tags by @mschwoer in #180
- #174: bump version to 1.6.0 by @mschwoer in #181
New Contributors
Full Changelog: v1.5.5...v1.6.0
Contributors
GeorgWa, mo-sameh, and 2 other contributors
Assets 4
v1.5.5
What's Changed
- Release 1.5.4 by @GeorgWa in #103
- FIX add missing columns by @GeorgWa in #105
- FEAT improved timsTOF quantification by @GeorgWa in #107
- FIX remove unused fragments on flatlib by @GeorgWa in #108
- FIX valid fragments pd by @GeorgWa in #109
- prepare release 1.5.5 by @GeorgWa in #115
Full Changelog: v1.5.4...v1.5.5
Contributors
GeorgWa
Assets 4
v1.5.4
What's Changed
- FIX undo hybridselection modification by @GeorgWa in #86
- Re-release v1.5.3 by @GeorgWa in #87
- feat: added config update functionality and a demo notebook by @mo-sameh in #85
- FEAT support for sciex wiff and mzml files by @GeorgWa in #88
- remove hard-coded pywin32==225 by @jalew188 in #89
- Release 1.5.3 by @GeorgWa in #90
- FEAT balanced pg qval by @GeorgWa in #94
- release 1.5.3 by @GeorgWa in #95
- Improved performance for peak group selection by @GeorgWa in #96
- Updated release workflow by @GeorgWa in #91
- FEAT improved DIA cycle determination by @GeorgWa in #97
- FEAT MS1 free search by @GeorgWa in #98
- FEAT improved integration limits for better quantification by @GeorgWa in #99
- FEAT Macos arm64 action by @GeorgWa in #101
- Win installer by @GeorgWa in #102
New Contributors
Full Changelog: v1.5.3...v1.5.4
Contributors
jalew188, GeorgWa, and mo-sameh
Assets 4
v1.5.3
Contributors
GeorgWa
Assets 5
v.1.5.2
What's Changed
- FEAT allow competition of precursors for fragments by @GeorgWa in #75
- BUG some gui parameters were ignored by @GeorgWa in #77
- BUG fixed CLI parameter handling by @GeorgWa in #78
- FEAT maximum parsimony and grouping for heuristic protein inference by @GeorgWa in #79
- Release 1.5.2 by @GeorgWa in #80
Full Changelog: v1.5.1...v.1.5.2
Contributors
GeorgWa
Assets 2
v1.5.1
What's Changed
- Fixed batching, gpu port, metrics calculation speedup by @boopthesnoot in #70
- Improved speed for large libraries by @GeorgWa in #71
- FEAT library prediction GUI by @GeorgWa in #73
- CHORE continous speclib import testing by @GeorgWa in #72
- Release 1.5.1 by @GeorgWa in #74
Full Changelog: v1.5.0...v1.5.1
Contributors
GeorgWa and boopthesnoot
Assets 4
v1.5.0
What's Changed
- FEAT Output Processing Pipeline by @GeorgWa in #57
- FIX updated grouping unit test by @GeorgWa in #59
- Added black linter to github actions by @boopthesnoot in #56
- Bump electron from 25.3.0 to 25.8.4 in /gui by @dependabot in #55
- FEAT fdr model speedup by @GeorgWa in #62
- CHORE updated unit tests by @GeorgWa in #63
- FEAT FDR performance tests by @GeorgWa in #65
- FEAT Major memory improvements by @GeorgWa in #64
- FEAT directLFQ based MS2 quantification by @GeorgWa in #67
- Implement FDR and AUC Metrics Calculation, Neptune params by @boopthesnoot in #66
- CHORE Workflow optim by @GeorgWa in #68
- release 1.5.0 by @GeorgWa in #69
New Contributors
- @boopthesnoot made their first contribution in #56
Full Changelog: v1.4.0...v1.5.0
Contributors
GeorgWa, dependabot, and boopthesnoot