API Reference

Cell cycle

Phase distributions and stacked composition plots.

cellcycle_plot()

Plot cell cycle phases in a 2x2 subplot grid with statistical analysis.

cellcycle_stacked()

Create a stacked barplot for cell cycle phase proportions with flexible display modes.

combplot_cellcycle()

Create a combined plot with histograms, scatter plots, and cell cycle barplot.

Counts and features

Cell counts, per-feature comparisons and normalisation.

count_plot()

Plot normalized or absolute counts with optional grouping.

feature_plot()

Plot a unified feature plot with box/violin plots and optional scatter points.

feature_norm_plot()

Create a normalized feature plot with threshold-based stacked bars.

combplot_feature()

Create a combined plot with histograms and scatter plots for feature analysis.

PlotType

Enumeration for plot types: normalised and absolute.

Distributions

Histograms and scatter plots of single-cell measurements.

histogram_plot()

Create histogram plot(s) for single or multiple conditions.

scatter_plot()

Create a scatter plot with flexible configuration.

Classification and QC

Classifier output and per-well quality control.

classification_plot()

Create a classification plot with flexible display options.

well_qc_plot()

Build a compact per-well QC figure (histogram + scatter + cell-cycle bar).

Utilities

save_fig()

Save a matplotlib figure to a file.