scgen.SCGEN.get_reconstruction_error¶
- SCGEN.get_reconstruction_error(adata=None, indices=None, batch_size=None)¶
Return the reconstruction error for the data.
This is typically written as \(p(x \mid z)\), the likelihood term given one posterior sample. Note, this is not the negative likelihood, higher is better.
- Parameters
- adata
AnnData
|None
Optional
[AnnData
] (default:None
) AnnData object with equivalent structure to initial AnnData. If None, defaults to the AnnData object used to initialize the model.
- indices
Sequence
[int
] |None
Optional
[Sequence
[int
]] (default:None
) Indices of cells in adata to use. If None, all cells are used.
- batch_size
int
|None
Optional
[int
] (default:None
) Minibatch size for data loading into model. Defaults to scvi.settings.batch_size.
- adata
- Return type