Skip to content

Issues: ebi-gene-expression-group/bulk-recalculations

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

17 Open 11 Closed
17 Open 11 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

SLURM resources as ‘partition’, ‘ntasks’, ‘cpus’, etc. need to be defined per rule enhancement New feature or request
#79 opened Dec 12, 2023 by pmb59
Generate {acc}-atlasExperimentSummary.Rdata also for proteomics studies enhancement New feature or request
#76 opened Sep 19, 2023 by pmb59
Proteomics initial inputs need better logic enhancement New feature or request
#74 opened Aug 23, 2023 by pmb59
Check $atlas_exps data move after successful recalculations
#70 opened Aug 3, 2023 by pmb59
Do not stop workflow if error in rule deconvolution
#69 opened Aug 1, 2023 by pmb59
Possible header error in <ACC>-transcripts-tpms.tsv with incorrect config xml help wanted Extra attention is needed
#66 opened May 15, 2023 by pmb59
2
Add baseline meta-analysis capabilities enhancement New feature or request
#64 opened Feb 15, 2023 by pmb59
Enable sample RNA-seq sample Deconvolution using single-cell reference datasets enhancement New feature or request
#63 opened Feb 15, 2023 by pmb59
@nadjano
Include XML validation for new experiment processing
#53 opened Oct 31, 2022 by pmb59
Removes extra files added by Snakemake recalculations/reprocessing
#50 opened Aug 25, 2022 by pmb59
Replace few python functions with config.get("param")
#48 opened Jul 6, 2022 by pmb59
Add directed acyclic graph (DAG) to README documentation Improvements or additions to documentation
#44 opened Jun 7, 2022 by pmb59
Check that rule round_log2_fold_changes_rnaseq is not unintentionally redone
#39 opened May 20, 2022 by pmb59
Improve variable requirements in run sorting hat script documentation Improvements or additions to documentation
#35 opened May 19, 2022 by pmb59
Improve rules definition of params and inputs in Snakefile enhancement New feature or request
#33 opened May 19, 2022 by pmb59
Assess whether we should bring kallisto fpkms for transcripts to the data prod part
#32 opened May 19, 2022 by pcm32
1
Analysis step error logs could show complete paths for easier inspection
#27 opened Nov 18, 2021 by pcm32
ProTip! Add no:assignee to see everything that’s not assigned.