setDistances: setDistances

In iaconogi/bigSCale2: 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 cell to cell distances using the highly variable genes.

Usage

setDistances(object, modality = "pca", pca.components = 25)

Arguments

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.
sce	object of the SingleCellExperiment class.

Value

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

Examples

sce=setDistances(sce)

iaconogi/bigSCale2 documentation built on July 18, 2020, 8:21 p.m.