Splitting SQ runs so that they run through the pipeline better
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- Dominant language
- Python
- Stars
- 3
- Forks
- 0
- PR merge metrics
- No merged PRs in 30d
Description
Adam mentioned that when we ask for more than 1 lane of sequencing from the NovaSeq, it would be better that we pool our plates so that samples only run on 1 lane instead of over all the lanes requested. We can do this in the lab, but WALDO needs to be able to assign libraries on a plate differently then we are assuming so that the pipeline knows which group of libraries to assign to each lane
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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
The issue does not name files or tests. Start by locating WALDO's library-assignment and plate-handling entry points, then trace how NovaSeq lane groups are passed to the sequencing pipeline. Done means libraries can be assigned so each pooled sample group runs on one requested lane, with coverage for the new assignment behavior.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- backend, data-engineering
- Issue type
- Feature
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 30/100