differentialabundance
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Hackathon 2025
As part of the hackathon 2025 we can start working on these issues. Feel free to add more tasks 🚀
Documentation
- [ ] pipeline usage enhancements, i.e contrasts
- [ ] simplification and renaming of parameters (i.e. transcript length)
- [ ] update metro map
Report
- [ ] prettify report layout
- [ ] add functional plots
- [ ] add gene labels
- [ ] add visualizations (i.e. boxplots of requested gene)
- [ ] discuss splitting quarto report
Refactoring
- [ ] paramsheet vs profile
- [ ] resuming behavior
- [ ] show all params from different paramsheets
- [ ] leaderboard
- [ ] samplesheet x toolsheet = paramsheet?
Plugins
- [ ] nf-co2plugin
- [ ] nfschema
- [ ] nf-hub
Modules
- [ ] fix modules upstream and update in pipeline to remove errors, i.e. param study_name
- [ ] add propr
- [ ] preranked GSEA
Note that we have already implemented some of the topics from "Report" in https://github.com/nf-core/differentialabundance/pull/545 (currently a bunch of merge conflicts, will update shortly).
For splitting the report, see https://github.com/nf-core/differentialabundance/pull/535