Extract dimensional reduction embedding (e.g., UMAP, tSNE, PCA).
Usage
get_embedding(seurat, embedding_name = "umap", dims = 1:2)
Arguments
- seurat
Seurat object
- embedding_name
Name of the reduction (e.g., "umap", "tsne", "pca")
- dims
Dimensions to extract (default: first 2)
Value
Matrix (cells x dimensions)
Examples
if (FALSE) { # \dontrun{
# Get UMAP coordinates
umap <- get_embedding(seurat, "umap")
# Get first 50 PCs
pcs <- get_embedding(seurat, "pca", dims = 1:50)
} # }