Extract obsp (cell x cell) matrices from an AnnData object

AnnData stores cell-pair matrices (e.g. nearest-neighbor graphs from `sc.pp.neighbors`: `connectivities`, `distances`) in `adata.obsp`. This helper returns them as a named list of sparse cell x cell CsparseMatrix objects, ready to be attached as Seurat `Graphs` or SCE `colPairs`.

Usage

extract_anndata_obsp(adata, obs_names = NULL)

Arguments

adata

An AnnData object.

obs_names

Character vector of cell names; used both for sanity- checking shape and for setting dimnames.

Value

A named list of sparse matrices (`n_obs x n_obs`). Empty list if `adata$obsp` is empty / missing.