# API Reference


## Cell cycle


Phase distributions and stacked composition plots.


[cellcycle_plot()](cellcycle_plot.md#omero_screen_plots.cellcycle_plot)  
Plot cell cycle phases in a 2x2 subplot grid with statistical analysis.

[cellcycle_stacked()](cellcycle_stacked.md#omero_screen_plots.cellcycle_stacked)  
Create a stacked barplot for cell cycle phase proportions with flexible display modes.

[combplot_cellcycle()](combplot_cellcycle.md#omero_screen_plots.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()](count_plot.md#omero_screen_plots.count_plot)  
Plot normalized or absolute counts with optional grouping.

[feature_plot()](feature_plot.md#omero_screen_plots.feature_plot)  
Plot a unified feature plot with box/violin plots and optional scatter points.

[feature_norm_plot()](feature_norm_plot.md#omero_screen_plots.feature_norm_plot)  
Create a normalized feature plot with threshold-based stacked bars.

[combplot_feature()](combplot_feature.md#omero_screen_plots.combplot_feature)  
Create a combined plot with histograms and scatter plots for feature analysis.

[PlotType](PlotType.md#omero_screen_plots.PlotType)  
Enumeration for plot types: normalised and absolute.


## Distributions


Histograms and scatter plots of single-cell measurements.


[histogram_plot()](histogram_plot.md#omero_screen_plots.histogram_plot)  
Create histogram plot(s) for single or multiple conditions.

[scatter_plot()](scatter_plot.md#omero_screen_plots.scatter_plot)  
Create a scatter plot with flexible configuration.


## Classification and QC


Classifier output and per-well quality control.


[classification_plot()](classification_plot.md#omero_screen_plots.classification_plot)  
Create a classification plot with flexible display options.

[well_qc_plot()](well_qc_plot.md#omero_screen_plots.well_qc_plot)  
Build a compact per-well QC figure (histogram + scatter + cell-cycle bar).


## Utilities


[save_fig()](save_fig.md#omero_screen_plots.save_fig)  
Save a matplotlib figure to a file.