c2v.pl.scaled_dotplot

c2v.pl.scaled_dotplot(adata, groupby, var_names, cmap='RdBu_r', vmin=-2.5, vmax=2.5, colorbar_title='Mean Z-score', max_value=5.0, **kwargs)

Function plots dotplot colored by scaled expression values. The problem with sc.pl.dotplot is that dot_size is defined by amount of the expression values more or equal than 0, and for scaled expressions it’s not the correct case.

Parameters:

adata sc.AnnData

Annotated data matrix.

groupby str

Key for observations grouping.

var_names list[str]

List of genes to plot.

cmap str

Colormap to use. Default is “RdBu_r”.

vmin float

Minimum value for color scaling. Default is -2.5.

vmax float

Maximum value for color scaling. Default is 2.5.

colorbar_title str

Title for the colorbar. Default is “Mean Z-score”.

max_value float

Maximum value for scaling expression values. Default is 5.

**kwargs

Additional keyword arguments to pass to sc.pl.dotplot.

Returns:

matplotlib.axes.Axes Axes object with the dotplot.