simba.tl.trim_edges

simba.tl.trim_edges(adata_ref_query, cutoff=None, n_edges=None)

Trim edges based on the similarity scores

Parameters:

• adata_ref_query (AnnData) – Annotated relation matrix betwewn reference and query observations.

• n_edges (int, optional (default: None)) – The number of edges to keep If specified, percentile will be ignored

• cutoff (float, optional (default: None)) – The distance cutoff. If None, it will be decided by n_top_edges If specified, n_top_edges will be ignored

Returns:

• updates adata_ref_query with the following field.

• `.layers[‘simba’]` (array_like) – relation matrix betwewn reference and query observations