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 object containing all observations.

  • log (bool) – Whether or not to display a logarithmic plot.

  • filter (Optional[str]) – The filter to apply to the barplot. Should be one of “top”, “bottom”, or None. Defaults to None .

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

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

  • sort (Optional[str]) – The row sort order to apply. Can be “ascending”, “descending”, or None.

  • figsize (Optional[tuple]) – The size of the figure to display.

  • color (str) – The color of the filled columns.

  • fontsize (float) – The figure’s font size.

  • labels (Optional[str]) – Whether or not to display the column names.

  • label_rotation (float) – What angle to rotate the text labels to.

  • orientation (Optional[str]) – The way the bar plot is oriented.

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

Returns:

The plot axis.

Examples

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