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BIOP
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qupath-extension-cellpose
an extension that wraps a Cellpose environment such that WSI can be analyzed using Cellpose through QuPath.
Apache License 2.0
63
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11
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ij.ImagePlus.getProcessor() error
#53
alicjamrzyglod
opened
5 days ago
3
Refactor 092024
#52
lacan
closed
1 month ago
0
different image ops for different channels ?
#51
NicoKiaru
closed
1 month ago
4
Conda returns
#50
lacan
closed
2 months ago
0
Specify intensity measurements in CellposeBuilder
#49
RouvenHoefflin
closed
2 months ago
1
Training cellpose on brightfield images (R, G, and B channels)
#48
danidean
opened
5 months ago
4
outdated readme
#47
NicoKiaru
closed
2 months ago
0
Bugfixes and update to Cellpose 3 logging
#46
lacan
closed
6 months ago
0
Scripts from menu Extension > Cellpose > Detect nuclei and cells ...
#45
romainGuiet
closed
5 months ago
0
Ensure that operations are the same when processing multiple images
#44
tfehlmann
closed
6 months ago
1
Offer cell + nuclei detection to create "real" cells
#43
lacan
opened
6 months ago
0
perhaps check that files are written before running environment runner
#42
lacan
closed
5 months ago
1
Better error logging when cellpose/omnipose fails
#41
lacan
closed
5 months ago
1
Adjust CONDA activate path call
#40
loicsauteur
closed
4 months ago
7
can not export upscaled image
#39
romainGuiet
closed
5 months ago
2
channels name can not contain space
#38
romainGuiet
closed
2 months ago
2
Parallel labels
#37
lacan
closed
8 months ago
0
Help with installation
#36
apal6
closed
10 months ago
10
[Docs] Improve the instructions/documentation in the README
#35
psobolewskiPhD
closed
10 months ago
2
Make paths space safe
#34
NicoKiaru
closed
10 months ago
2
Update qupath v0.5.0
#33
lacan
closed
11 months ago
0
Count number of individual masks
#32
saarah815
closed
1 year ago
3
Custom training model
#31
saarah815
closed
1 year ago
3
"WARN: Unable to write image" when running Cellpose_training_template.groovy
#30
tvanluu07
closed
1 year ago
4
Bundle Training and Inference Scripts into extension and add an entry into Extensions > Cellpose
#29
lacan
closed
1 year ago
0
Disambiguate parameter names in Cellpose/Omnipose preferences
#28
lacan
closed
1 year ago
0
Select save and temp folders during builder
#27
lacan
closed
1 year ago
2
Further training on an image?
#26
penguingiraffe2
closed
1 year ago
2
Getting a no compatible writer issue?
#25
penguingiraffe2
closed
1 year ago
3
unrecognized arguments: -W ignore -m cellpose
#24
alexZhongvai
closed
1 year ago
1
Preprocessing options
#23
pakiessling
closed
1 year ago
1
Omnipose limited support
#22
lacan
closed
1 year ago
0
save output of image as single .tif?
#21
josenimo
closed
1 year ago
1
bash no permission
#20
mcib3d
closed
1 year ago
2
Using other Cellpose 2.0 built-in models ?
#19
ofrag
closed
1 year ago
2
Qp v0.4.0 update
#18
lacan
closed
1 year ago
0
Qp v0.4.0 update
#17
lacan
closed
1 year ago
0
run for project freezes intermittently
#16
mezwick
closed
1 year ago
13
min_train_masks option
#15
RAHoebe
closed
1 year ago
7
Changed the way project base dir is inferred
#14
zindy
closed
2 years ago
1
No annotations for detected object
#13
xcccc402
closed
2 years ago
1
conda.bat path
#12
ZhaoJK
closed
2 years ago
2
Fixes errors in new Extension version
#11
lacan
closed
2 years ago
0
Cellpose v2
#10
lacan
closed
2 years ago
0
Cannot run init the conda env and run the python command
#9
bpavie
closed
2 years ago
4
Add overlap option in builder
#8
lacan
closed
2 years ago
1
Make better documentation
#7
lacan
closed
2 years ago
1
Impoved support for logging when training cellpose
#6
lacan
closed
2 years ago
0
Tiled Segmentation
#5
RAHoebe
closed
2 years ago
3
adds support for cellpose 1.0
#4
lacan
closed
2 years ago
0
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