troutpy.pl.spatial_transcripts

troutpy.pl.spatial_transcripts#

troutpy.pl.spatial_transcripts(sdata, gene_key='gene', gene_list=None, color_key='transcript_type', shapes_key='cell_boundaries', colormap='30colors', boundary_linewidth=0.5, scatter_size=1.0, alpha=0.8, use_roi=False, roi=(0, 20000, 0, 20000), figsize=(8, 8), title='Cell Boundaries + Transcripts')#

Plots a scatter plot of genes with their estimated diffusion coefficient (D_estimated) on the x-axis and a statistical metric (e.g., KS statistic) on the y-axis. Each point is labeled with the gene name.

Parameters:

  • diffusion_results (pandas.DataFrame) – DataFrame containing diffusion results with gene names as index.

  • x_col (str) – Column to use for x-axis (default: “D_estimated”).

  • y_col (str) – Column to use for y-axis (default: “ks_stat”).

Return type:

tuple[Figure, Axes]

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