INNER CODE UNIT · Python

to_picklable_anndata

scverse/PyDESeq2 · src/pydeseq2/dds.py:1072

    def to_picklable_anndata(self) -> ad.AnnData:
        """Convert the DESeqDataSet to a picklable AnnData object.

        Builds an AnnData object from the DESeqDataSet with the same data, but converts the design matrix to a DataFrame to remove the formulaic model_spec attribute, which is not picklable.

        Returns
        -------
        The AnnData object, without DeseqDataSet unpicklable attributes.
        """
        # Initialize an AnnData object
        adata = ad.AnnData(
            X=self.X,
            obs=self.obs,
            var=self.var,
            obsm=self.obsm,
            varm=self.varm,
            uns=self.uns,
            layers=self.layers,

View source record →