vanvalenlab deepcell-applications issues

vanvalenlab / deepcell-applications

Run DeepCell Applications

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issues

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Unable to identify large cells and filter small impurities well

#45 ZhangPenglan opened 4 months ago
1
Only nuclei mask for ome.tiff files/non-RGB tif files

#44 KOBE24DUNK opened 4 months ago
2
ValueError: input array dimensions for the concatenation axis mismatch

#43 KOBE24DUNK closed 4 months ago
1
Encountered error <COMPRESSION.LZW: 5> requires the 'imagecodecs' package

#42 liuyang2006 closed 5 months ago
1
Remove Entrypoint from Docker image

#41 FloWuenne closed 9 months ago
3
Error when running mesmer on multi-channel image

#40 apal6 closed 10 months ago
1
Replace the deprecated tifffile.imsave with imwrite.

#39 rossbar closed 1 year ago
0
Rm scikit-image pin and bump deepcell-tf version.

#38 rossbar closed 1 year ago
0
Adding conda package for mesmer

#37 FloWuenne closed 9 months ago
2
Bump dependencies to support compressed OME TIFs

#36 rossbar closed 1 year ago
1
add imagecodecs and update deepcell-tf to 0.12.4

#35 aandytu closed 1 year ago
3
General maintenance of test infrastructure

#34 rossbar closed 1 year ago
0
Update default actions to latest version.

#33 rossbar closed 1 year ago
1
A Docker image without ENTRYPOINT

#32 ArtemSokolov closed 2 years ago
3
Changes to membrane-image definition

#31 FloWuenne opened 2 years ago
8
Memory usage with large .ome.tiff images

#30 FloWuenne closed 2 years ago
4
Pre-release updates

#29 ngreenwald closed 2 years ago
0
Update to new Mesmer model

#28 ngreenwald closed 2 years ago
0
generated mask appears black in windows photo viewer

#27 E5ten closed 2 years ago
7
Problems reading OME-TIFF files with LZW compression

#26 ArtemSokolov closed 1 year ago
8
Add "both" to the argument parser.

#25 willgraf closed 3 years ago
0
--compartment argument mismatch

#24 Glassonion closed 3 years ago
3
Batch processing

#23 jil24 closed 2 years ago
3
Adding testing for argparse

#22 ngreenwald closed 3 years ago
4
Update docker image to use deepcell 0.10.0

#21 willgraf closed 3 years ago
0
Add `--squeeze` to all the child subparsers.

#20 willgraf closed 3 years ago
0
pip install coveralls in GHA workflows.

#19 willgraf closed 3 years ago
0
Upgrade DeepCell to version 0.10.0

#18 willgraf closed 3 years ago
0
Add `--squeeze` to CLI arguments.

#17 willgraf closed 3 years ago
0
Integration with MCMICRO

#16 ArtemSokolov closed 3 years ago
23
Improvements to the application

#15 ngreenwald closed 3 years ago
1
Upgrade DeepCell to 0.9.2 and set up CI/CD workflows

#14 willgraf closed 3 years ago
0
Add support for multi-channel .ome.tiff

#13 ArtemSokolov closed 3 years ago
2
AttributeError: module 'deepcell.utils' has no attribute 'get_image'

#12 ArtemSokolov closed 3 years ago
3
Update base image to 0.8.3-gpu

#11 willgraf closed 3 years ago
0
Update default post-processing

#10 ngreenwald closed 4 years ago
3
Update base image to deepcell 0.6.0

#9 willgraf closed 4 years ago
0
Instantiate the application in the image to cache the weights.

#8 willgraf closed 4 years ago
0
Updated README with example Python command.

#7 willgraf closed 4 years ago
1
Cache MultiplexSegmentation model weights in the docker image.

#6 willgraf closed 4 years ago
1
Update Dockerfile base image

#5 willgraf closed 4 years ago
1
Update the possible arguments for main.py

#4 willgraf closed 4 years ago
0
Add example input/output image?

#3 ngreenwald closed 2 years ago
1
Add support for additional command line arguments

#2 ngreenwald closed 4 years ago
3
Run an example Python script with a deepcell-based Docker container.

#1 willgraf closed 4 years ago
0