griffithlab / griffithlab/pVACtools
Investigate supporting snpEff annotations
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Nobody has claimed this yet.
- Dominant language
- Python
- Stars
- 188
- Forks
- 81
- Avg merge
- 9d 17h
- Merged PRs (30d)
- 6
Description
Dieter Best shared an example VCF annotated with snpEff with me on Google Drive. This will be used to explore whether it is possible to use this annotation format to make pVACseq predictions.
Contributor guide
No contributing guide indexed for this repository
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 snpEff-annotated VCF example shared on Google Drive and the pVACseq annotation and prediction entry points. Determine whether the format can be consumed and document a concrete feasibility result; the issue does not name files or tests to run.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 30/100