ehrapy.preprocessing.clip_quantile¶

ehrapy.preprocessing.clip_quantile(adata, limits, vars=None, obs_cols=None, *, copy=False)[source]¶

Clips (limits) features.

Given an interval, values outside the interval are clipped to the interval edges.

Parameters:

adata (AnnData) – The AnnData object to clip.
limits (tuple[float, float]) – Values outside the interval are clipped to the interval edges.
vars (Collection[str]) – Columns in var with features to clip.
obs_cols (Collection[str]) – Columns in obs with features to clip
copy (bool) – Whether to return a copy of AnnData or not

Return type:

AnnData

Returns:

A copy of original AnnData object with clipped features.

Examples

>>> import ehrapy as ep
>>> adata = ep.dt.mimic_2(encoded=True)
>>> ep.pp.clip_quantile(adata, vars=["bmi"])