Skip to content

Issues: BodenmillerGroup/steinbock

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

28 Open 178 Closed
28 Open 178 Closed
Author
Filter by author
Label
Filter by label
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Milestones
Filter by milestone
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

Strange invalid literal error..
#259 opened May 9, 2024 by paulrbuckley-kcl
deepcell segmenting error
#256 opened Apr 26, 2024 by megankmckie
1
[Bug]No neighborhood Data in h5ad-files? duplicate This issue or pull request already exists
#210 opened Aug 9, 2023 by albert180
1
tissuenet model support and documentation documentation Improvements or additions to documentation
#208 opened Aug 3, 2023 by lassedochreden
Maximum amount of segmented cells bounded from segmentation output file format (16-bit unsigned integer TIFF images) documentation Improvements or additions to documentation
#207 opened Aug 2, 2023 by asom
3
Using the preprocess external option with large images bug Something isn't working
#206 opened Jul 17, 2023 by mjseignon
6
cytomarker panels enhancement New feature or request
#205 opened Jul 11, 2023 by jwindhager
Add option to remove the first acquisition row in IMC images. enhancement New feature or request
#204 opened Jul 11, 2023 by nathansteenbuck
1
--strict/--no-strict for steinbock preprocess imc images command enhancement New feature or request
#202 opened Jun 30, 2023 by jwindhager
TypeError - code that used to work
#201 opened Jun 28, 2023 by paulrbuckley-kcl
Add a --channels-last option to steinbock preprocess external enhancement New feature or request
#199 opened Jun 21, 2023 by jwindhager
Obfuscated logging in external preprocessing bug Something isn't working
#198 opened Jun 20, 2023 by jwindhager
ome-tiff issue
#197 opened Jun 20, 2023 by paulrbuckley-kcl
3
Concatenated anndata export does not retain neighborhood information bug Something isn't working
#196 opened Jun 16, 2023 by jwindhager
Error when running steinbock classify ilastik run
#195 opened Jun 12, 2023 by nilseling
4
Segmentation fault in python package
#192 opened May 27, 2023 by ynanli
6
Update the CellProfiler pipeline for pixel classification based segmentation
#191 opened May 25, 2023 by nilseling
5
Enable memory mapping by default enhancement New feature or request
#171 opened Feb 16, 2023 by jwindhager
Add steinbock export zarr command enhancement New feature or request
#170 opened Feb 16, 2023 by jwindhager
Potentially introduce steinbock preprocess ome/zarr panel/images commands enhancement New feature or request
#169 opened Feb 16, 2023 by jwindhager
Implement mosaic overlap for segmentation enhancement New feature or request good first issue Good for newcomers
#161 opened Jan 13, 2023 by jwindhager
Document & test use with singularity documentation Improvements or additions to documentation good first issue Good for newcomers
#159 opened Jan 13, 2023 by jwindhager
7
Feature request: saving images in other file formats enhancement New feature or request good first issue Good for newcomers
#113 opened Mar 22, 2022 by nilseling
5
Comparison of neighbour detection to CellProfiler good first issue Good for newcomers verify Issue that needs to be verified first
#107 opened Feb 23, 2022 by nilseling
5
Add logging of steinbock commands enhancement New feature or request good first issue Good for newcomers
#103 opened Feb 18, 2022 by jwindhager
2
ProTip! Adding no:label will show everything without a label.