AlexsLemonade / AlexsLemonade/sc-data-integration
Function to calculate IDER-based metric
- Dominant language
- HTML
- Stars
- 0
- Forks
- 0
- PR merge metrics
- No merged PRs in 30d
Description
We should write a function that takes an integrated SCE object and calculates the IDER-based metric. The final output from this function should be an R object that can be saved to file, likely either TSV or RDS depending on the specific content of the calculations.
References:
- "Quick start" from the R package README: https://github.com/zhiyhu/CIDER#cider-as-an-evaluation-metric---quick-start
- Vignette: https://zhiyhu.github.io/CIDER/articles/evaluation.html
As described in the references above, the input will need to be a `Seurat` object, so this function will need to convert SCE --> Seurat to begin.
Contributor guide
No contributing guide indexed for this repository
Research direction
Start with the CIDER Quick start in the R package README and the evaluation vignette linked in the issue to understand the required metric inputs and outputs. Then inspect the existing SCE-to-Seurat conversion entry point, if present; done means a function accepts the integrated SCE object, computes the IDER-based metric, and returns a savable R object.
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
- Mostly clear
- Newbie friendliness
- 25/100