Simplify FASTA downloads should only include on-target sequences
Open
Nobody has claimed this yet.
enhancement
micall
- Dominant language
- Python
- Stars
- 21
- Forks
- 11
- Avg merge
- 12h 5m
- Merged PRs (30d)
- 24
Description
The file is hard to look through when there are many garbage reads from samples that didn't really contain that region.
Also combine different genotypes of the same region into a single download.
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 locating the code that generates FASTA downloads and the logic that identifies on-target sequences and groups genotypes by region. Done means downloads exclude garbage reads from samples lacking the target region and combine different genotypes of the same region into one download.
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
- Mostly clear
- Newbie friendliness
- 35/100