getTopHVG {singleCellTK} | R Documentation |
getTopHVG Extracts the top variable genes from an input singleCellExperiment object
getTopHVG(inSCE, method, n = 2000)
inSCE |
an input singleCellExperiment object |
method |
represents which method to use for variable gene extraction from either Seurat "vst", "mean.var.plot", "dispersion" or Scran "modelGeneVar" |
n |
number of top variable genes to extract |
list of top variable gene names
Irzam Sarfraz
data(sce_chcl, package = "scds") sce_chcl <- scranModelGeneVar(sce_chcl, "counts") # return top 10 variable genes topGenes <- getTopHVG(sce_chcl, "modelGeneVar", 10)