ehrapy.plot.missing_values_barplot

ehrapy.plot.missing_values_barplot(adata, *, log=False, filter=None, max_cols=0, max_percentage=0, sort=None, figsize=None, color='dimgray', fontsize=16, labels=None, label_rotation=45, orientation=None, categoricals=False)[source]

A bar chart visualization of the nullity of the given AnnData object.

Parameters:

  • adata (AnnData) – AnnData object containing all observations.

  • log (bool, default: False) – Whether to display a logarithmic plot.

  • filter (str | None, default: None) – The filter to apply to the barplot. Should be one of “top”, “bottom”, or None.

  • max_cols (int, default: 0) – The max number of columns from the AnnData object to include.

  • max_percentage (float, default: 0) – The max percentage fill of the columns from the AnnData object.

  • sort (str | None, default: None) – The row sort order to apply. Can be “ascending”, “descending”, or None.

  • figsize (tuple | None, default: None) – The size of the figure to display.

  • color (str, default: 'dimgray') – The color of the filled columns.

  • fontsize (float, default: 16) – The figure’s font size.

  • labels (str | None, default: None) – Whether to display the column names.

  • label_rotation (float, default: 45) – What angle to rotate the text labels to.

  • orientation (str | None, default: None) – The way the bar plot is oriented.

  • categoricals (bool, default: False) – Whether to include “ehrapycat” columns to the plot.

Returns:

The plot axis.

Examples

>>> import ehrapy as ep
>>> adata = ep.dt.mimic_2(encoded=True)
>>> ep.pl.missing_values_barplot(adata, filter="bottom", max_cols=15, max_percentage=0.999)
Preview:
../../_images/missingno_barplot.png