DR.SC | Joint dimension reduction and spatial clustering |
DR.SC.Seurat | Joint dimension reduction and spatial clustering |
DR.SC_fit | Joint dimension reduction and spatial clustering |
drscPlot | tNSE or UMAP plot visualization |
FindSVGs | Find spatially variable genes |
gendata_RNAExp | Generate simulated data |
getAdj | Calculate the Adjoint matrix given the spatial coordinates |
getneighborhood_fast | getneighborhood_fast |
HCC1 | A liver dataset on Visium platform |
mbicPlot | MBIC plot visualization |
read10XVisium | Read the spatial transcriptomics data measured on 10X Visium platform |
readscRNAseq | Read the scRNAseq data measured on scRNA sequencing platform |
RunWPCA | Run Weighted Principal Component Analysis |
spatialPlotClusters | Spatial coordinates plot visualization |
sp_means_Rcpp | Calculate column-wise or row-wise mean |
sp_sums_Rcpp | Calculate column-wise or row-wise sum |
topSVGs | Return the top n SVGs |