Skip to content

Issues: openpipelines-bio/openpipeline

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

32 Open 157 Closed
32 Open 157 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

Add disk space directive which scales with task attempts bug Something isn't working
#905 opened Nov 22, 2024 by rcannood v2.0.0
1
Gene cross-checking component
#834 opened Jul 10, 2024 by jakubmajercik
@jakubmajercik
scGPT: use sparse matrix calculations
#790 opened Apr 19, 2024 by dorien-er
Adding an integration test for scGPT integration workflow
#784 opened Apr 11, 2024 by dorien-er
@jakubmajercik
Generate scGPT preproc subworkflow
#782 opened Apr 4, 2024 by dorien-er
implement scGPT cell type annotation workflow
#777 opened Apr 2, 2024 by jakubmajercik
1
@jakubmajercik
Create mudata namespace an move components that perform basic operation on the mudata objec to it (delete_layer, remove_modality). Most of these currently are put in the metadata or filter namespace.
#770 opened Mar 26, 2024 by DriesSchaumont
TODO list for the paper
#738 opened Mar 8, 2024 by VladimirShitov
8 tasks
1
Update scarches component
#709 opened Feb 15, 2024 by VladimirShitov
@VladimirShitov
FEATURE: Add functionality to exlcude some features from the analysis.
#696 opened Feb 7, 2024 by DriesSchaumont
Add more per-component logging
#649 opened Jan 12, 2024 by DriesSchaumont
Capitalized modality names are not processed by full pipeline workflow enhancement New feature or request
#626 opened Dec 5, 2023 by KaiWaldrant
3
Multi sample test files for ATAC components
#625 opened Nov 28, 2023 by VladimirShitov
Remove big binary files
#622 opened Nov 24, 2023 by rcannood
2
cellbender output saved in additional layer enhancement New feature or request
#618 opened Nov 16, 2023 by magochab
2
Report the number/percentage of HVGs present in 2 modalities
#608 opened Oct 31, 2023 by VladimirShitov
Output the number of highly variable genes selected enhancement New feature or request
#595 opened Oct 24, 2023 by ddemaeyer
1
Add scarches workflow
#582 opened Oct 6, 2023 by DriesSchaumont
Refactor the TotalVI component to also allow running without reference
#546 opened Sep 8, 2023 by ddemaeyer
5
Redundancy in label transfer components?
#539 opened Sep 6, 2023 by VladimirShitov
1
Rethink documentation organisation.
#517 opened Aug 18, 2023 by DriesSchaumont
Create gatekeeper components to perform checks in a pipeline
#435 opened Jun 14, 2023 by DriesSchaumont
Move common code to a separate script
#413 opened Jun 5, 2023 by VladimirShitov
4 tasks
1
ATAC components
#398 opened May 17, 2023 by SarahOuologuem
3 of 6 tasks
6
Pipeline documentation - small adjustments
#372 opened Apr 24, 2023 by Isabelle-b
1 of 5 tasks
1
ProTip! What’s not been updated in a month: updated:<2024-11-23.