grassp.pl.highly_variable_proteins

highly_variable_proteins(adata_or_result, *, highly_variable_proteins=True, show=None, save=None, log=False)

Mean–variance relationship for protein expression.

A lightweight wrapper around scanpy.pl.highly_variable_genes() which substitutes genes with proteins. It visualises the mean intensity versus dispersion (or variance for the Seurat v3 flavour) and highlights the subset flagged as highly variable during highly_variable_proteins().

Parameters:

adata_or_result AnnData | DataFrame | recarray

Either an AnnData object that already contains the highly-variable-proteins results (adata.uns['hvg'] & friends) or the corresponding result DataFrame/recarray returned by highly_variable_proteins().

highly_variable_proteins bool (default: True)

If True (default) only the highly variable subset is highlighted in black; otherwise the entire set is displayed uniformly.

show bool | None (default: None)

If True (default) the plot is shown and the function returns None.

save bool | str | None (default: None)

If True or a str, save the figure. A string is appended to the default filename. Infer the filetype if ending on {'.pdf', '.png', '.svg'}.

log bool (default: False)

Plot axes on log-scale (disabled by default).

Return type:

Axes | None

Returns:

Returns the current axes if show is False.

Notes

Adapted from Scanpy’s implementation to use proteins terminology.