scmags.ScMags.markers_heatmap

ScMags.markers_heatmap(scale=True, log_norm=True, cmap=<matplotlib.colors.LinearSegmentedColormap object>, figsize=(15, 16), plot_name='scmags_heatmap_of_markers', save_plot=False, plot_dpi=300)

Draws a heatmap with selected markers

Parameters

• scale (bool) – Scales marker genes from 0 to 1.

• log_norm (bool) – Performs log normalization before scaling.

• figsize (Optional[Tuple[int, int]]) – Figure size.

• cmap (Optional[str]) – A Colormap instance or registered colormap name. (matplotlib cmap)

• plot_name (Optional[str]) – Name of plot to save

• save_plot (bool) – If True, the plot is saved in the working directory.

• plot_dpi (int) – The dpi value of the figure to be saved

Examples

>>> import scmags as mg
>>> li = mg.datasets.li()
>>> li.filter_genes()
>>> li.sel_clust_marker()
>>> li.markers_heatmap(figsize = (13,15))