omicverse.pl.create_custom_colormap

omicverse.pl.create_custom_colormap#

omicverse.pl.create_custom_colormap(cell_color, *, name='custom_transparent', N=100)[source]#

Build a transparent-to-opaque LinearSegmentedColormap of a single colour.

The colormap maps value 0 to the given colour at alpha 0 (fully transparent) and value 1 to alpha 1 (fully opaque), keeping the RGB channels constant. Useful for overlaying one cell-type / marker density over a morphology image without masking it — low values disappear into the background, high values pop in the base colour.

Parameters:

  • cell_color (str or tuple) – Base colour — any matplotlib-recognised spec (hex, name, RGB tuple).

  • name (str, default 'custom_transparent') – Registered colormap name.

  • N (int, default 100) – Number of quantisation levels in the returned colormap.

Returns:

A colormap whose alpha channel grows linearly from 0 to 1.

Return type:

matplotlib.colors.LinearSegmentedColormap

Contents