troutpy.pl.gene_communication

troutpy.pl.gene_communication#

troutpy.pl.gene_communication(sdata, kind='heatmap', gene='', celltype_key='cell type', vmax=None, vmin=None, cmap='BuPu', dendrogram_ratio=0.1, **kwargs)#

Plot cell type-cell type interaction strength as a heatmap or chord diagram.

Parameters:

  • sdata (spatialdata.SpatialData) – The spatial data object containing interaction scores.

  • kind (str) – Type of plot, either ‘heatmap’ or ‘chord’. Default is ‘heatmap’.

  • celltype_key (str) – Key for cell type colors in sdata['table'].uns. Default is ‘cell type’.

  • gene (str) – Name of the gene to be plotted

  • vmax (float) – Max value for colormap scaling. Default is None.

  • vmin (float) – Min value for colormap scaling. Default is None.

  • cmap (str) – Colormap for heatmap or chord diagram. Default is ‘BuPu’.

  • kwargs (dict) – Additional arguments passed to the plotting functions.

Contents