anndict.plot.module_score_umap

anndict.plot.module_score_umap(adata, score_cols, adt_key=None, **kwargs)

Generates UMAP plots for specified module scores in a single figure.

Parameters:

adata AnnData

Annotated data matrix containing UMAP coordinates and module scores.

score_cols list[str]

List of column names in adata containing module scores to plot.

adt_key tuple[str, ...] | None (default: None)

Used by adata_dict_fapply() and adata_dict_fapply_return() when passing this function.

**kwargs

Additional keyword arguments passed to sc.pl.umap, including 'vmax' for color scaling (default is 'p99').

Return type:

Figure

Returns:

Figure containing the UMAP plots.

Examples

import anndict as adt

# Calculate Scores
adt.cell_type_marker_gene_score(adata, cell_type_col='cell_type', species='Human', list_length="longer")

# Calculate a umap
sc.pp.neighbors(adata)
sc.tl.umap(adata)

# Plot the results
plots = adt.module_score_umap(adata, score_cols=score_cols + ['cell_type'])