anndict.plot.module_score_barplot

anndict.plot.module_score_barplot(adata, group_cols, score_cols, figsize=(10, 8), adt_key=None)

Create a bar plot of mean module scores grouped by specified columns.

Parameters:

adata AnnData

The AnnData object containing the data.

group_cols str | list[str]

The column(s) in adata.obs to group by.

score_cols str | list[str]

The column(s) in adata.obs that contain the module scores.

figsize tuple[int, int] (default: (10, 8))

The figure size (width, height)

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

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

Return type:

tuple[Figure, Axes]

Returns:

The Figure and Axes objects of the plot.

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_barplot(adata, group_cols='cell_type', score_cols=score_cols)

See also

cell_type_marker_gene_score()

To calculate cell type marker gene scores.