This issue tracks adding a function and associated tests to rOpenScpCA to calculate silhouette width from a given set of clusters. The function should take a PC matrix (or sce/seurat object) and data frame with clusters and cell IDs. The function should return an updated cluster data from with silhouette width values. Note that calculating average silhouette width is not something this function will do; that will be in a future function to summarize/visualize stats.
sjspielman
commented
1 month ago
Relevant discussions
https://github.com/AlexsLemonade/OpenScPCA-analysis/discussions/727 & https://github.com/AlexsLemonade/OpenScPCA-analysis/discussions/731
Proposed addition
This issue tracks adding a function and associated tests to
rOpenScpCAto calculate silhouette width from a given set of clusters. The function should take a PC matrix (or sce/seurat object) and data frame with clusters and cell IDs. The function should return an updated cluster data from with silhouette width values. Note that calculating average silhouette width is not something this function will do; that will be in a future function to summarize/visualize stats.