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 2.18.0 Index]