ngless-toolkit / ngless-toolkit/ngless
Add ability to strip sequences/qualities from SAM/BAM files
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good first issue
help wanted
- Dominant language
- Rust
- Stars
- 152
- Forks
- 23
- PR merge metrics
- No merged PRs in 30d
Description
When working with very large SAM files it is often convenient to remove sequence and quality information to reduce storage and improve I/O.
Following from this it would be convenient to have a stripSeqQual function that replaces the two fields with *.
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
Locate the entry point for SAM/BAM processing and determine where a stripSeqQual function belongs. Implement the requested behavior so sequence and quality fields are replaced with *, then verify the resulting files preserve the expected SAM/BAM structure.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- rust
- Domain
- data
- Issue type
- Feature
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100