cellink.pp.log_transform

cellink.pp.log_transform(adata, *, base=2, inplace=True, copy=True)

Apply log transformation to protein abundance values.

This function applies a log transformation to the abundance values, which can help stabilize variance and reduce skewness in the data.

Parameters:

• adata (AnnData) – The annotated data matrix of shape n_obs x n_vars.

• base (float (default: 2)) – The base of the logarithm (e.g., 2 or 10).

• inplace (bool (default: True)) – Whether to update adata or return a copy of the new AnnData object.

• copy (bool (default: True)) – Whether to modify copied input object. Not compatible with inplace=False.

Return type:

AnnData | None

Returns:

Returns the AnnData object with log-transformed data or updates the input adata if inplace is True.