Add dnapler module (genome rotation to dnaA)
Open
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enhancement
- Dominant language
- Nextflow
- Stars
- 93
- Forks
- 74
- Avg merge
- 1d 22h
- Merged PRs (30d)
- 2
Description
Description of feature
Description
Implement a module for dnaapler, a tool for rotating circular bacterial genomes to start at the dnaA gene. It’s a simpler alternative to Circlator, ideal for polishing workflows.
Goal
- Build a new module that runs dnaapler with a FASTA input
- Add test data and unit tests
- Provide documentation
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 examining how existing modules in the bacass pipeline invoke tools and how their test data and unit tests are organized. Add a module that runs dnaapler on FASTA input, include representative test data and unit tests, and document its use; completion means the module is tested and documented.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100