navinlabcode / navinlabcode/CellTrek
CellTrek on other spatial data, like cosmx SMI data or stereo-seq data.
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- Dominant language
- R
- Stars
- 135
- Forks
- 23
- PR merge metrics
- No merged PRs in 30d
Description
Hi, I have paired 10X platform single cell RNA-seq data and cosmx SMI 6k panel spatial transcriptomic data, can I use this method? Beacuse data format in seuratobject@images part is quite different.
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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
No files or tests are named. Start by checking how CellTrek reads Seurat object's @images data, then compare that expectation with the cosmx SMI and stereo-seq formats mentioned. Done requires an explicit compatibility decision and documented scope for supported input formats.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- r
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100