spatialde -

This release adds wrappers to use the SpatialDE methods with AnnData objects.

For the spatial significance test, it is used e.g. this way: ``` from SpatialDE.anndata import spatialde_test

results = spatialdetest(adata, coordcolumns=['x', 'y'], regressformula='~np.log(totalcounts)') ```

For automatic expression histology, it is used e.g. this way: ``` from SpatialDE.anndata import automaticexpressionhistology

histologyresults, patterns = \ automaticexpressionhistology(adata, sres, C=8, l=1000.0, coordcolumns=['x', 'y'], layer='residual', verbosity=1) ```

- Jupyter Notebook
Published by vals almost 8 years ago

spatialde -

- Jupyter Notebook
Published by vals over 8 years ago