Integration Methods

CPU-based Methods

methods.HVGMethod(adata[, layer, ...])	Highly Variable Genes method using scanpy.
methods.LIGERMethod(adata[, k, ...])	LIGER integration method.
methods.PrecomputedEmbeddingMethod(adata[, ...])	Method for using pre-computed embeddings (e.g., PCA, UMAP, etc.).
methods.ScanoramaMethod(adata[, sigma, ...])	Scanorama integration method.

GPU-based Methods

methods.HarmonyMethod(adata[, theta])	Harmony integration method (GPU-accelerated).
methods.ResolVIMethod(adata[, n_hidden, ...])	ResolVI integration method for spatial transcriptomics.
methods.scANVIMethod(adata[, scvi_params, ...])	scANVI integration method.
methods.scPoliMethod(adata[, ...])	scPoli integration method.
methods.scVIMethod(adata[, n_latent, ...])	scVI integration method.
methods.scVIVAMethod(adata[, ...])	scVIVA integration method for spatial transcriptomics with neighborhood modeling.