scVIVA-Tools#
scVIVA-Tools is a consolidated spatial transcriptomics analysis toolkit built on top of scvi-tools, exposing ResolVI, DestVI, scVIVA, DiagVI, Harreman, gimVI, Stereoscope, and Tangram through a clean, unified API.
Models#
Denoising and segmentation-error correction for single-cell resolved spatial transcriptomics.
Cell-type deconvolution of spatial transcriptomics spots with sub-cell-type resolution.
Niche-aware variational inference for cellular microenvironment modeling.
Diagonal integration of unpaired multi-modal single-cell data using prior cross-modal feature correspondences.
Metabolic exchange and cell-cell communication inference from spatial transcriptomics data.
Joint imputation of missing genes across paired scRNA-seq and spatial transcriptomics datasets.
Two-stage deconvolution of cell type proportions in spatial transcriptomics spots.
Mapping single-cell RNA-seq data onto spatial transcriptomics via optimal transport.