Man pages for feiyoung/DR.SC
Joint Dimension Reduction and Spatial Clustering
| DR.SC | 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 |
| genspatialdata | Generate simulated data |
| getAdj | Calculate the adjacency matrix given the spatial coordinates |
| getAdj_auto | Calculate adjacency matrix by automatically choosing radius |
| getAdj_manual | Calculate adjacency matrix by user-specified radius |
| getneighborhood_fast | getneighborhood_fast |
| HCC1 | A human dorsolateral prefrontal cortex data |
| mbicPlot | MBIC plot visualization |
| read10XVisium | Read the spatial transcriptomics data measured on 10X Visium... |
| readscRNAseq | Read the scRNAseq data measured on scRNA sequencing platform |
| RunWPCA | Run Weighted Principal Component Analysis |
| selectModel | Select the number of clusters |
| 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 |
