minSpanningTree {monocle}R Documentation

Retrieves the minimum spanning tree generated by Monocle during cell ordering.

Description

Retrieves the minimum spanning tree (MST) that Monocle constructs during orderCells(). This MST is mostly used in plot_spanning_tree to help assess the accuracy of Monocle\'s ordering.

Usage

minSpanningTree(cds)

Arguments

cds

expression data matrix for an experiment

Value

An igraph object representing the CellDataSet's minimum spanning tree.

Examples

## Not run: 
T <- minSpanningTree(HSMM)

## End(Not run)

[Package monocle version 2.22.0 Index]