Joint Dimension Reduction and Spatial Clustering

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Documentation for package ‘DR.SC’ version 2.3

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

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