setDCT: setDCT

In kritikakarri/bigSCale: A framework for the analysis of single cell data (RNA-seq and ATAC-seq) including clustering,phenotyping,pseudotime and inferring gene regulatory networks.

Description

computes t-SNE, UMAP and clusters

Usage

setDCT(object, pca.components = 25)

Arguments

sce	object of the SingleCellExperiment class.
modality	If classic uses the default bigSCale algorythm. If alternative, uses an alternative approach which gives a different clustering/TNSE in case you are not satisfied with the default one.

Value

object of the SingleCellExperiment class, with cell to cell distances stored inside (in the virtual memory)

Examples

sce=setDCT(sce)

kritikakarri/bigSCale documentation built on Dec. 21, 2021, 7:47 a.m.