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kreshuklab
/
plant-seg
A tool for cell instance aware segmentation in densely packed 3D volumetric images
https://kreshuklab.github.io/plant-seg/
MIT License
99
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31
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Fix and document distance transform watershed for 2D pmaps/images
#318
qin-yu
closed
2 months ago
1
Group widgets for batch `.hide()`/`.show()`
#317
qin-yu
closed
2 months ago
0
Proofreading initialisation doesn't give proofreading buttons in v2
#316
qin-yu
closed
2 months ago
1
2D watershed errors in v2
#315
qin-yu
closed
2 months ago
2
Improve model filters | Use RadioButtons | Custom modality
#314
qin-yu
closed
2 months ago
1
Fix size finder and widgets for 2D UNet
#313
qin-yu
closed
2 months ago
1
Fix TIFF default layer name and hide key widget
#312
qin-yu
closed
2 months ago
0
refactor: use `magicgui.types.Separator`
#311
qin-yu
closed
2 months ago
1
Make VoxelSize iterable and array-like, remove `.is_valid`
#310
qin-yu
closed
2 months ago
0
GL ES 2.0 error
#309
z-lumley
closed
1 month ago
4
Complexity in prediction widget
#308
qin-yu
opened
2 months ago
3
Compute best patch and halo shapes by default, reduce user effort
#307
qin-yu
closed
2 months ago
1
ci(pre-commit.ci): autoupdate
#306
pre-commit-ci[bot]
closed
2 months ago
0
Properly refresh ComboBox choices with functions
#305
qin-yu
closed
2 months ago
1
fix(widget-IO): temp fix #282 and auto generate layer name
#304
qin-yu
closed
2 months ago
1
Test and refactor `.core` and `functionals.dataprocessing`
#303
qin-yu
closed
2 months ago
1
Automatic patch shape recommendation
#302
qin-yu
closed
3 months ago
1
2D Segmentation CNN Postprocessing Dimensions Error
#301
FliFlaFlock
opened
3 months ago
3
Use Codecov
#300
qin-yu
closed
3 months ago
0
Tests: Fix all existing tests
#299
qin-yu
closed
3 months ago
0
PlantSeg.Core: `ModelZoo`, `PlantSegImage`, and `VoxelSize`
#298
qin-yu
closed
3 months ago
0
Add important widgets and improve logger further
#297
qin-yu
closed
3 months ago
0
Unify and standardise logging in PlantSeg v2
#296
qin-yu
closed
3 months ago
0
No semantic type for probability maps
#295
qin-yu
opened
3 months ago
0
Remove layout ZCXY
#294
lorenzocerrone
closed
2 months ago
0
Failed to load or parse config_train.yml: 'loaders'
#293
Yifan-debug
closed
2 days ago
1
PlantSeg v2 `handle_multichannel` should handle output not input
#292
qin-yu
closed
2 months ago
0
ci(pre-commit.ci): autoupdate
#291
pre-commit-ci[bot]
closed
3 months ago
0
Should functionals take PlantSeg classes e.g. `VoxelSize` or `tuple[float, float, float]`
#290
qin-yu
opened
4 months ago
1
Axis order might have been inconsistent
#289
qin-yu
closed
2 months ago
3
PlantSeg v2 I/O Utility's `VoxelSize` only allows `µm`
#288
qin-yu
closed
2 months ago
1
PlantSeg v2 uses `napari` as folder name which conflicts with Napari
#287
qin-yu
closed
2 months ago
1
Non-OOM error raised by PyTorch during `find_batch_size()`
#286
OriKovacsiKatz
closed
2 days ago
5
PlantSeg v2: full codebase refactor with unified task framework, enhanced prediction/proofreading, and metadata handling
#285
lorenzocerrone
closed
2 months ago
1
ci(pre-commit.ci): autoupdate
#284
pre-commit-ci[bot]
closed
5 months ago
0
Refactor Actions because docs build contains conda build
#283
qin-yu
opened
5 months ago
0
"Open File" widget cannot load two datasets from the same HDF5 file
#282
qin-yu
closed
2 months ago
0
`Need more labels` error from `vigra` during watershed in classic GUI
#281
athulrv
opened
5 months ago
3
Proofreading tool doesn't allow adding scribbles
#280
Buglakova
closed
2 days ago
2
fix(cropping): use RangeSlider to fix #278 | handle `None` image
#279
qin-yu
closed
5 months ago
1
Cropping widget allows float, should be int only
#278
qin-yu
closed
5 months ago
0
fix(installation): remove old configs if `KeyError` | macOS installation
#277
qin-yu
closed
5 months ago
2
Pin python=3.11 for MacOS
#276
lorenzocerrone
closed
5 months ago
0
fixes PlantSeg crash on apple silicon #273
#275
lorenzocerrone
closed
5 months ago
8
Error while trying to open GUI in the latest PlantSeg version
#274
adkrishnan
closed
2 days ago
10
PlantSeg crash on apple silicon
#273
lorenzocerrone
closed
5 months ago
2
feat(pred): check and free VRAM for prediction with oversized patch
#272
qin-yu
closed
5 months ago
2
fix(docs): teach Qt to find napari icons
#271
qin-yu
closed
5 months ago
0
Watershed uses only one CPU and runs very slow on large volumes
#270
qin-yu
opened
5 months ago
2
fix: links in docs, docstring warning and theme override
#269
qin-yu
closed
5 months ago
0
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