ehrapy.plot.qc_metrics#

ehrapy.plot.qc_metrics(adata, extra_columns=None)[source]#

Plots the calculated quality control metrics for var of adata.

Per default this will display the following features: missing_values_abs, missing_values_pct, mean, median, standard_deviation, max, min.

Parameters:

  • adata (AnnData) – Annotated data matrix.

  • extra_columns (Optional[list[str]]) – List of custom (qc) var columns to be displayed additionally.

Return type:

None

Examples

>>> import ehrapy as ep
>>> adata = ep.dt.mimic_2(encoded=True)
>>> ep.pp.qc_metrics(adata)
>>> ep.pl.qc_metrics(adata)