findAncestor: Find the ancestors of specified nodes

In fionarhuang/TreeSummarizedExperiment: TreeSummarizedExperiment: a S4 Class for Data with Tree Structures

Description

findAncestor finds the ancestor in the nth generation above specified nodes.

Usage

findAncestor(tree, node, level, use.alias = FALSE)

Arguments

tree	A phylo object
node	A vector of node numbers or node labels
level	A vector of numbers to define nth generation before the specified nodes
use.alias	A logical value, TRUE or FALSE. The default is FALSE, and the node label would be used to name the output; otherwise, the alias of node label would be used to name the output. The alias of node label is created by adding a prefix "alias_" to the node number.

Value

A vector of nodes. The numeric value is the node number, and the vector name is the corresponding node label. If a node has no label, it would have NA as name when use.alias = FALSE, and have the alias of node label as name when use.alias = TRUE.

Author(s)

Ruizhu Huang

Examples

library(ggtree)
data(tinyTree)
ggtree(tinyTree, branch.length = 'none') +
 geom_text2(aes(label = label), color = "darkorange",
           hjust = -0.1, vjust = -0.7) +
 geom_text2(aes(label = node), color = "darkblue",
               hjust = -0.5, vjust = 0.7)

 findAncestor(tree = tinyTree, node = c(18, 13), level = 1)

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