matTree: Transform a phylo object into a matrix.

Description Usage Arguments Value Author(s) Examples

View source: R/tree_matTree.R

Description

matTree transforms a phylo tree into a matrix. The entry of the matrix is node number. Each row represents a path connecting a leaf node and the root. The columns are arranged in the order as the path passing the nodes to reach the root.

Usage

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matTree(tree)

Arguments

tree

A phylo object

Value

A matrix

Author(s)

Ruizhu Huang

Examples

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library(ggtree)

data(tinyTree)
ggtree(tinyTree, branch.length = 'none') +
 geom_text2(aes(label = node))


# each row of the matrix representing a path.
# the first column is leaf nodes; the last non-NA value in a row is the root
mat <- matTree(tree = tinyTree)

fionarhuang/TreeSummarizedExperiment documentation built on June 16, 2021, 2:11 p.m.