Skip to content

Issues: nf-core/molkart

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

Clear current search query, filters, and sorts
0 Open 37 Closed
0 Open 37 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
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

JSON schema: Molkart
#111 by jen-reeve was closed Mar 25, 2025
14 of 15 tasks
1
@kbestak
Add cellpose cellprob_threshold parameter enhancement Improvement for existing functionality
#92 by kbestak was closed Mar 24, 2025 1.2.0 - Cartography Castle
Template update v3.0.2 ready-for-review PR is ready for review
#86 by kbestak was closed Oct 28, 2024
@kbestak
Segmentation with Stardist enhancement Improvement for existing functionality
#80 by kbestak was closed Mar 6, 2025
@sebotic
1
Add methods description in report documentation Improvements or additions to documentation
#79 by kbestak was closed Mar 6, 2025
Make Mindagap optional
#74 by kbestak was closed Oct 3, 2024
@kbestak
MultiQC custom output bug Something isn't working
#72 by kbestak was closed Sep 15, 2024
@kbestak
nf-core/molkart template update 2.14.1
#70 by kbestak was closed Jun 12, 2024
1
@kbestak
Fix create training set module to not create overlapping crops enhancement Improvement for existing functionality
#68 by FloWuenne was closed Mar 6, 2025
1
Update training image counts to start at 1 instead of 0 bug Something isn't working
#66 by FloWuenne was closed Mar 25, 2025 1.2.0 - Cartography Castle
1
@miri-2000
Template update for nf-core/tools v2.13.1 in Molkart imaging
#62 by kbestak was closed Jun 12, 2024
@kbestak
Unable to install cellpose with apptainer on HPC bug Something isn't working
#61 by giacuong171 was closed Jun 12, 2024
4
Replace Zenodo DOI with a general one (accidentally used the one only for 1.0.0)
#59 by kbestak was closed Jun 12, 2024
@kbestak
Deepcell_mesmer doesn't work on AWS with WAVE and FUSION bug Something isn't working imaging
#56 by FloWuenne was closed Jun 12, 2024
1
@FloWuenne
4
Merge template update for nf-core/tools v2.11
#47 by kbestak was closed Jan 4, 2024
@kbestak
Mesmer randomly fails on HPC using singularity due to model loading bug Something isn't working
#43 by FloWuenne was closed Jan 9, 2024
1
Go over remaining TODOs
#41 by kbestak was closed Jan 24, 2024
Maskfilter too slow enhancement Improvement for existing functionality
#38 by kbestak was closed Dec 16, 2023
@FloWuenne
1
Update tower.yml to include all qc metrics
#37 by kbestak was closed Feb 21, 2024
@kbestak
2
Reduce image size for local modules.
#34 by kbestak was closed Dec 8, 2023
@kbestak
1
If create training subset is run, pass crop overview to MultiQC. enhancement Improvement for existing functionality
#29 by kbestak was closed Dec 15, 2023
@FloWuenne @kbestak
1
Molcart_QC --> Molkart_QC
#28 by kbestak was closed Dec 6, 2023
@FloWuenne @kbestak
1
Clahe optimization enhancement Improvement for existing functionality
#27 by kbestak was closed Dec 3, 2023
@kbestak
2
Add anndata container as an output format enhancement Improvement for existing functionality
#26 by FloWuenne was closed Jan 5, 2024
@FloWuenne
1
Documentation update documentation Improvements or additions to documentation
#24 by kbestak was closed Dec 6, 2023
@kbestak
1
ProTip! Type g i on any issue or pull request to go back to the issue listing page.