Add sanity check for reference sequences
Nobody has claimed this yet.
- Dominant language
- Python
- Stars
- 21
- Forks
- 11
- Avg merge
- 12h 5m
- Merged PRs (30d)
- 24
Description
We've been surprised to find strange characters in our reference sequences, and they have caused issues like #86. We should add some level of sanity check on the scripts that first use our reference sequences to confirm that they only contain the expected letters.
To start with, do a manual review of the reference sequences and clean out unexpected characters.
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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
Review the reference sequences and identify the scripts that first use them. Check the sequences for characters outside the expected alphabet, remove unexpected characters, and add the requested sanity check so invalid reference data is detected.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 45/100