cns_manhattan_plot

pylluminator.visualizations.cns_manhattan_plot(data_to_plot: DataFrame, segments_to_plot=None, x_col='start_bin', chromosome_col='chromosome', y_col='cnv', figsize: tuple[float, float] | None = (10, 8), title: None | str = None, save_path: None | str = None) → None

Display a Manhattan plot of the given CNS data, designed to work with the dataframes returned by copy_number_segmentation()

Parameters:

• data_to_plot (pandas.DataFrame) – dataframe to use for plotting. Typically, the bins coordinate dataframe returned by copy_number_segmentation()

• segments_to_plot (pandas.DataFrame) – if set, display the segments using columns “chromosome”, “start”, “end” and “mean_cnv” of the given dataframe, where start and end are the position on the chromosome (as returned by copy_number_segmentation())

• chromosome_col (str) – the name of the chromosome column in the data_to_plot dataframe. Default: chromosome

• x_col (str) – name of the column to use for X axis, start position of the probe/bin. Default: start_bin

• y_col (str) – the name of the value column in the data_to_plot dataframe. Default: cnv

• figsize (tuple) – size of the figure. Default: (10, 8)

• title (str | None) – custom title for the plot. Default: None

• save_path (str | None) – if set, save the graph to save_path. Default: None

Returns:

None