Attach obsm embeddings to a Seurat object as dimensional reductions — attach_reductions

Uses an obsm-key -> (reduction-name, key-prefix) mapping. Keys not in the mapping fall back to a derived name: leading `X_` stripped, lowercased, with a sanitized key prefix.

Usage

attach_reductions_seurat(
  seurat_obj,
  obsm,
  assay = "RNA",
  reduction_map = list()
)

Arguments

seurat_obj: A Seurat object to attach reductions to.
obsm: Named list of numeric matrices (cells x dim), as returned by `extract_anndata_obsm()`.
assay: Assay name to associate the reductions with. Defaults to "RNA".
reduction_map: Named list overriding or extending `default_reduction_map()`. Each entry maps an obsm key (e.g. `"X_pca"`) to a list with `name` and `key`. The supplied map is merged on top of the defaults; pass an empty list to keep defaults, or pass an entry with `name = NA` to disable a default.

Value

The Seurat object with reductions attached.