spac.data_utils.subtract_min_per_region(adata, annotation, layer, min_quantile=0.01)[source]

Substract the minimum quantile of every marker per region.

Parameters:

  • adata (anndata.AnnData) – The AnnData object.

  • annotation (str) – The name of the annotation in adata to define batches.

  • min_quantile (float) – The minimum quantile to rescale to zero.

  • layer (str) – The name of the new layer to add to the AnnData object.