alphapepttools.pp.scale_and_center

alphapepttools.pp.scale_and_center#

alphapepttools.pp.scale_and_center(adata, scaler='standard', layer=None, *, copy=False)#

Scale and center data.

Either use standard or robust scaling. ‘robust’ scaling relies on interquartile range and is more resistant to outliers. Scaling operates on columns only for now.

Parameters:

  • adata (AnnData) – Anndata object with data to scale.

  • scaler (str (default: 'standard')) – Sklearn scaler to use. Available scalers are ‘standard’ and ‘robust’.

  • layer (Optional[str] (default: None)) – Name of the layer to scale. If None (default), the data matrix X is used.

  • copy (bool (default: False)) – Whether to return a modified copy (True) of the anndata object. If False (default) modifies the object inplace

Return type:

None | AnnData

Returns:

None | anndata.AnnData If copy=False modifies the anndata object at layer inplace and returns None. If copy=True, returns a modified copy.

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