new module: graphtyper/genotypesv
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Description
Is there an existing module for this?
- I have searched for the existing module
Is there an open PR for this?
- I have searched for existing PRs
Is there an open issue for this?
- I have searched for existing issues
Further Information
Similar to the existing graphtyper/genotype module (https://github.com/nf-core/modules/issues/2853) which does small variants, it would be great to also have one available for the genotype_sv command, which does structural variants.
https://github.com/DecodeGenetics/graphtyper/wiki/User-guide#structural-variants-svs
@zachary-foster any chance you'd be able to help out with this?
Are you going to work on this?
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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 reviewing the existing graphtyper/genotype module referenced in issue 2853 and the Graphtyper structural-variants user guide. Use the genotype_sv command as the entry point; done means a corresponding module is available for Graphtyper structural variants and follows the repository's module conventions.
Written by the indexing model from the issue text.
Assessment
- Domain
- tooling
- Issue type
- Feature
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100