cellink.pl.expression_by_genotype

cellink.pl.expression_by_genotype(dd, snp=None, celltype_key='celltype', gene_filter=None, celltype_filter=None, mode='cell_type', n_cols=None, a0='a0', a1='a1', figsize=None, labelsize=None, titlesize=None, plot_type='violin', show_stripplot=False, show_axis_ticks=True, title=None, palette='Set2', show=None, save=None, dpi=300, ax=None)

Plot gene expression by donor genotype across cell types or genes.

Parameters:

• dd (DonorData) – Donor-level expression and genotype data.

• snp (str or int) – SNP ID or index to stratify by genotype.

• celltype_key (str) – Column in .obs denoting cell type.

• gene_filter (list) – Genes to include in the plot.

• celltype_filter (list) – Optional list of cell types to include.

• mode ({'cell_type', 'gene'}) – Group plots by cell type or gene.

• n_cols (int) – Number of columns in FacetGrid.

• a0 (str) – Column name for allele 0.

• a1 (str) – Column name for allele 1.

• figsize (tuple) – Size of the figure.

• labelsize (int) – Size of axis labels.

• titlesize (int) – Title font size.

• plot_type ({'violin', 'box'}) – Plot type to use.

• show_stripplot (bool) – Whether to overlay a stripplot.

• show_axis_ticks (bool) – Whether to show axis ticks for subplots.

• title (str) – Title for the plot.

• palette (str) – Seaborn color palette.

• show (bool or None) – Whether to display the plot. Defaults to auto-show behavior.

• save (str or bool or None) – File path or boolean to save the plot.

• ax (matplotlib.axes.Axes or None) – Optional matplotlib Axes to plot into.

• dpi (int) – Resolution for saved image.

Return type:

Figure

Returns:

matplotlib.figure.Figure The resulting figure.