lineagegraph: Inference of a Lineage Graph

In RaceID: Identification of Cell Types, Inference of Lineage Trees, and Prediction of Noise Dynamics from Single-Cell RNA-Seq Data

Inference of a Lineage Graph

Description

This function assembles a lineage graph based on the cell projections onto inter-cluster links.

Usage

lineagegraph(object, verbose = TRUE)

Arguments

object	Ltree class object.
verbose	logical. If FALSE then status output messages are disabled. Default is TRUE.

Value

An Ltree class object with lineage graph-related data stored in slots ltcoord, prtree, and cdata.

Examples

sc <- SCseq(intestinalDataSmall)
sc <- filterdata(sc)
sc <- compdist(sc)
sc <- clustexp(sc)
sc <- findoutliers(sc)
sc <- comptsne(sc)
ltr <- Ltree(sc)
ltr <- compentropy(ltr)
ltr <- projcells(ltr)
ltr <- lineagegraph(ltr)

RaceID documentation built on April 4, 2025, 4:34 a.m.