spac.visualization.tsne_plot(adata, color_column=None, ax=None, **kwargs)[source]

Visualize scatter plot in tSNE basis.

Parameters:

  • adata (anndata.AnnData) – The AnnData object with t-SNE coordinates precomputed by the ‘tsne’ function and stored in ‘adata.obsm[“X_tsne”]’.

  • color_column (str, optional) – The name of the column to use for coloring the scatter plot points.

  • ax (matplotlib.axes.Axes, optional (default: None)) – A matplotlib axes object to plot on. If not provided, a new figure and axes will be created.

  • **kwargs – Parameters passed to scanpy.pl.tsne function.

Returns:

  • fig (matplotlib.figure.Figure) – The created figure for the plot.

  • ax (matplotlib.axes.Axes) – The axes of the tsne plot.