navinlabcode / navinlabcode/CellTrek
clarification on overall method
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- Dominant language
- R
- Stars
- 135
- Forks
- 23
- PR merge metrics
- No merged PRs in 30d
Description
Hi,
thanks for a great package! I wanted to clarify your overall method. The resulting image in the shiny app shows one cell per spot (i think), and I wanted to clarify how that specific cell was chosen when in reality there are multiple cells per spot.
Does CellTrek map each cell to a specific spot so that each spot has multiple cells (and then choose one for the shiny app) or does it choose the best cell for each spot and leave many of the single cells without a spatial location?
Any clarification is appreciated!
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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 Shiny app entry point and the documentation or analysis code describing CellTrek's cell-to-spot mapping. Trace how multiple cells per spot are handled and how the image selects or displays cells. Done means adding a clear explanation that answers both alternatives raised in the issue.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- r
- Domain
- bioinformatics, documentation
- Issue type
- Documentation
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100