liana.utils.interpolate_adata¶
- liana.utils.interpolate_adata(target: AnnData, reference: AnnData, spatial_key: str, layer=None, use_raw=True, method: str = 'linear', fill_value: float = 0, verbose=False) AnnData¶
Interpolates spatial data from a target AnnData object to a reference AnnData object based on spatial coordinates. The function creates a new AnnData object where the .X attribute is filled with interpolated data using the specified method.
- Parameters:
- target
The AnnData object to be interpolated.
- reference
The AnnData object to be used as reference.
- spatial_key
Key in adata.obsm that contains the spatial coordinates. Default is ‘spatial’.
- layer
Layer in anndata.AnnData.layers to use. If None, use anndata.AnnData.X.
- use_raw
Use raw attribute of adata if present.
- method
Interpolation method. See scipy.interpolate.griddata for more information.
- fill_value
Value to fill in for points outside of the convex hull of the input points.
- verbose
Verbosity flag.
- Returns:
- AnnData: A new AnnData object with the same metadata as the reference but with interpolated spatial data in .X.