Version 0.2.1

New features :

• Utility to find best threshold for supervised models
• Better defaults for provided demo data in inference
• Default threshold is now updated per-model, to help obtain suitable predictions quicker

What's Changed

• Update README.md by @MMathisLab in #67
• Small docs update for WNet by @C-Achard in #68
• Some training fixes and improvements by @C-Achard in #65
• Small inference docs update by @C-Achard in #69
• Fix setup.cfg name by @C-Achard in #66
• test directory and very small data cube by @MMathisLab in #75
• Add demo instructions by @C-Achard in #78
• Create CODE_OF_CONDUCT.md by @MMathisLab in #77
• Update macbook conda by @MMathisLab in #72
• Small API changes for training by @C-Achard in #70
• update training of WNet3D by @MMathisLab in #79
• Colab demo : Inference by @C-Achard in #80
• v0.2.0 by @C-Achard in #73
• Update README.md by @MMathisLab in #82
• small updates to Colab demo by @MMathisLab in #81
• Update README.md by @MMathisLab in #84
• Update README.md by @constantinpape in #88
• Add pyClEsperanto troubleshooting by @C-Achard in #90
• correct readme install by @hausmanns in #92
• Fix dtype of demo data by @C-Achard in #94
• Update tests by @C-Achard in #97
• v0.2.1 : Update defaults and new utilities by @C-Achard in #98
• Fix dependencies for deploy by @C-Achard in #100

New Contributors

• @constantinpape made their first contribution in #88
• @hausmanns made their first contribution in #92

Full Changelog: v0.1.2...v0.2.1

Version 0.2.0

Test release of version 0.2.0

• Fix deprecation warning regarding package name in setup.cfg
• Refreshed installation procedure for ARM64 (Mac)
• New example volumes and a Colab demo notebook
• Added code of conduct

What's Changed

• Update README.md by @MMathisLab in #67
• Small docs update for WNet by @C-Achard in #68
• Some training fixes and improvements by @C-Achard in #65
• Small inference docs update by @C-Achard in #69
• Fix setup.cfg name by @C-Achard in #66
• test directory and very small data cube by @MMathisLab in #75
• Add demo instructions by @C-Achard in #78
• Create CODE_OF_CONDUCT.md by @MMathisLab in #77
• Update macbook conda by @MMathisLab in #72
• Small API changes for training by @C-Achard in #70
• update training of WNet3D by @MMathisLab in #79
• Colab demo : Inference by @C-Achard in #80

Full Changelog: v0.1.2...v0.2.0rc1

Version 0.1.2

• Fix issue with napari manifest on PyPi

Version 0.1.1

Hotfix for v0.1.0 :

• Fixed an issue with models initialization in inference
• Fixed artifact removal UI visibility

Version 0.1.1rc1

What's Changed

• Update pyproject.toml; minimal conda for m1 by @MMathisLab in #38
• Voronoi-Otsu labeling + instance segmentation code overhaul by @C-Achard in #34
• WNet + models code refactor by @C-Achard in #36
• Additional tests by @C-Achard in #42
• Temp fix for CRF by @C-Achard in #46
• Improved Utilities by @C-Achard in #44
• WNet training by @C-Achard in #47
• WandB/Colab + docs by @C-Achard in #48
• Feedback fixes by @C-Achard in #58
• v1.0 Draft - Training improvements and fixes by @C-Achard in #43
• Fixes for v0.1.0 by @C-Achard in #62

Full Changelog: v0.0.2rc6...v0.1.1rc1

Interface overhaul, v0.0.2rc6

• Updated UI
• Many fixes
• New docs action/pre-commit hooks

v0.0.1rc4

What's Changed

• Timer improvement by @C-Achard in #27
• Inference on layer by @C-Achard in #26
• Adding SwinUNetR by @vidalmaxime in #12
• v0.0.1rc4 by @C-Achard in #29

Full Changelog: v0.0.1rc3...v0.0.1rc4

v0.0.1rc3

What's Changed

• Various fixes by @C-Achard in #11
• Added more anisotropy handling + fix global in review by @C-Achard in #14
• UI API overhaul + several features/fixes by @C-Achard in #17
• Moved weights download + enhancements by @C-Achard in #19
• Improved pretrained weights usage by @C-Achard in #24
• v0.0.1rc3 by @MMathisLab in #16

Full Changelog: v0.0.1rc2...v0.0.1rc3

v0.0.1rc2

What's Changed

• Updated plugin visibility for napari-hub by @C-Achard in #8
• Mwm/download models by @MMathisLab in #6
• Bug fix in local installation & minor fixes in launch_review by @vidalmaxime in #10

New Contributors

• @jeylau

Full Changelog: v0.0.1rc1...v0.0.1rc2

v0.0.1rc1

Hello World! This is cellseg3D, a napari plugin for 3D cell segmentation specifically geared towards mesoSPIM data. This is written primarily by @C-Achard at EPFL. This code will undergo development -- please get in touch if you want to hear more about our roadmap, we are very open to contributions and making these models are interoperable to other tools as possible.

Full Changelog: https://github.com/AdaptiveMotorControlLab/CellSeg3d/commits/v0.0.1rc1