Add coverage plots and scores for non-coding regions
Nobody has claimed this yet.
- Dominant language
- Python
- Stars
- 21
- Forks
- 11
- Avg merge
- 12h 5m
- Merged PRs (30d)
- 24
Description
Issue #589 added non-coding regions to nuc.csv counts, but didn't include them in coverage plots or coverage_scores.csv. That means that they won't be visible from QAI's micall pages. If that frustrates users, then add plots and scores.
- Decide how to score coverage. Are there key positions?
- Add a new version of the coverage maps that uses nucleotide positions instead of amino acid positions.
Contributor guide
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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 issue #589 and the existing handling of non-coding regions in nuc.csv, then inspect how coverage plots and coverage_scores.csv feed MiCall pages. Decide which nucleotide positions matter for scoring and define the coverage-map version using nucleotide rather than amino-acid positions. Done means non-coding regions appear in the plots and receive documented coverage scores.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100