AlexsLemonade / AlexsLemonade/scpcaTools
Ensure imported barcodes have no zero counts
Open
- Dominant language
- R
- Stars
- 1
- Forks
- 0
- PR merge metrics
- No merged PRs in 30d
Description
In https://github.com/AlexsLemonade/scpcaTools/pull/286 we updated the alevin-fry import to round counts when requested, but in doing so we can sometimes create SCE objects where there is a barcode with all zero counts. We should filter these out to avoid some potential downstream issues.
Contributor guide
Research direction
Start by reviewing pull request #286 and the alevin-fry import path it changed. Update the import behavior so resulting SCE objects exclude barcodes with all zero counts, then verify imported objects contain no all-zero barcodes.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- r
- Domain
- data
- Issue type
- Bug
- Difficulty
- 2/5
- Estimated time
- 1-3 hours
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 50/100