Developer API

Internal base classes and mixins used to build new scviva models.

Base classes

SpatialBaseModel	Base class for all scviva models.
SpatialNeighborhoodMixin	Mixin for spatial neighbor graph computation.
SpatialDeconvolutionMixin	Mixin for spatial deconvolution result formatting and visualization.
SpatialPredictiveMixin	Shared predictive methods for spatial models with neighbor graphs.

Data fields

SpatialCoordsField	AnnData obsm field for 2D/3D spatial coordinates.
NeighborhoodGraphField	AnnData obsm field for neighbor index/distance arrays.

Modules (neural networks)

nicheVAE	Variational auto-encoder with niche decoders [Levy et al., 2025].
JVAE	Joint variational auto-encoder for imputing missing genes in spatial data.