Batch correction and reference mapping in SCOP — RunIntegration dispatching 23 methods (Uncorrected, Seurat, CCA, RPCA, Harmony, Harmony5, MNN, fastMNN, fastMNN5, scVI, scVI5, PeakVI, PoissonVI, Scanorama, BBKNN, CSS, LIGER, Conos, ComBat, Coralysis, WNN, MultiMAP, GLUE), plus RunIntegrationBenchmark, IntegrationBenchmarkPlot, RunLISI, and the projection mappers RunPCAMap, RunSeuratMap, RunCSSMap, RunSymphonyMap, RunHarmony2. Use when combining multiple samples or batches, or mapping a query onto a reference. Label transfer is in scop-annotation.
