nf-core / nf-core/variantbenchmarking
Add rep.py report
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enhancement
- Dominant language
- Nextflow
- Stars
- 51
- Forks
- 31
- Avg merge
- 1d 22h
- Merged PRs (30d)
- 1
Description
Description of feature
Happy calculates metrics for multiple variant subtypes as well as region stratified variants.
The rep.py script creates a report that present all of these information.
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 linked reporting/basic/rep.py script and the variantbenchmarking pipeline's existing reporting entry points. Confirm how Happy metrics for variant subtypes and region-stratified variants are produced, then make the report include both categories and verify its output against representative benchmark results.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- data
- Issue type
- Feature
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Quiet
- Clarity
- Mostly clear
- Newbie friendliness
- 48/100