new module: manta/annotate
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new module
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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
Manta has an inversion annotation script that can be used to annotate these types after the run. This module should run the script to have more detailed results.
https://github.com/Illumina/manta/blob/master/docs/userGuide/README.md#inversions
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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 with Manta's inversion section in the linked user guide and determine how its annotation script is invoked after a run. Review the repository's module conventions and nf-test setup before defining the module inputs and outputs. Done means the new manta/annotate module runs the script and produces the more detailed inversion results described there.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100