VEuPathDB / VEuPathDB/study-wrangler
`inspect(entity)` is unusably slow with large data, e.g. RNA-Seq assays
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bug
- Dominant language
- R
- Stars
- 0
- Forks
- 0
- Avg merge
- 2d 1h
- Merged PRs (30d)
- 1
Description
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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 locating the inspect(entity) entry point in the study-wrangler code and reproduce the slowdown with a large RNA-Seq assay. Profile the operation to identify the bottleneck; done means inspect(entity) is usable on the reported large-data case without changing its expected result.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- r
- Domain
- bioinformatics, data, performance
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 20/100