multi2dend: Translate multilevel segmentation into a dendrogram, with the...

In sccore: Core Utilities for Single-Cell RNA-Seq

Translate multilevel segmentation into a dendrogram, with the lowest level of the dendrogram listing the cells

Description

Translate multilevel segmentation into a dendrogram, with the lowest level of the dendrogram listing the cells

Usage

multi2dend(cl, counts, deep = FALSE, dist = "cor")

Arguments

cl	igraph communities object, returned from igraph community detection functions
counts	dgCmatrix of counts
deep	boolean If TRUE, take (cl$memberships[1,]). Otherwise, uses as.integer(membership(cl)) (default=FALSE)
dist	Distance metric used (default='cor'). Eiether 'cor' for the correlation distance in log10 space, or 'JS' for the Jensen–Shannon distance metric (i.e. the square root of the Jensen–Shannon divergence)

Value

resulting dendrogram

sccore documentation built on April 14, 2025, 1:08 a.m.