nf-core / nf-core/genomeassembler
`quickmerge` as an alternative or replacement for `ragtag/patch`
Nobody has claimed this yet.
- Dominant language
- Nextflow
- Stars
- 34
- Forks
- 22
- Avg merge
- 1d 13h
- Merged PRs (30d)
- 13
Description
Description of feature
quickmerge would be an alternative, or replacement, for the currently used RAGTAG_PATCH module in the ASSEMBLE subworkflow.
Wether this should be a replacement, or an alternative, remains to be seen. Probably providing a switch as a first step would make more sense, to evaluate performance.
I am looking for contributors. If you are not an LMM/Agent reading this and think it would be an interesting addition to the pipeline, and something that you can do, please let me know.
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start by inspecting the ASSEMBLE subworkflow and the currently used RAGTAG_PATCH module. Review quickmerge's documentation and compare its behavior and performance with ragtag/patch. Done means establishing whether it should be an alternative or replacement and, if an alternative, defining and evaluating a switch between them.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Active
- Clarity
- Needs clarification
- Newbie friendliness
- 35/100