fastClust {scDblFinder}R Documentation

fastClust

Description

fastClust

Usage

fastClust(sce, nfeatures = 1000, k = 10, dims = 20,
  graph.type = c("snn", "knn"), method = c("louvain", "fast_greedy",
  "overcluster"), BPPARAM = BiocParallel::SerialParam(), ...)

Arguments

sce

An object of class 'SingleCellExperiment'

nfeatures

For the PCA

k

number of nearest neighbors

dims

number of PCA dimensions

graph.type

either snn or knn

method

Either 'louvain' or 'fast_greedy'

BPPARAM

Passed to scran for KNN/SNN graph generation

...

passed to 'overcluster'

Value

The 'SingleCellExperiment' object with an additional colData column scDblFinder.clusters


[Package scDblFinder version 1.1.8 Index]