dlpfc151510 |
A human dorsolateral prefrontal cortex data |
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 adjacency matrix given the spatial coordinates |
getAdj.Seurat |
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 |
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 |
selectModel |
Select the number of clusters |
selectModel.drscObject |
Select the number of clusters |
selectModel.Seurat |
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 |