alakazam (version 1.3.0)

permuteLabels: Permute the node labels of a tree

Description

permuteLabels permutes the node annotations of a lineage tree.

Usage

permuteLabels(graph, field, exclude = c("Germline", NA))

Value

A modified igraph object with vertex annotations permuted.

Arguments

graph

igraph object containing an annotated lineage tree.

field

string defining the annotation field to permute.

exclude

vector of strings defining field values to exclude from permutation.

See Also

testEdges.

Examples

# Define and plot example graph
library(igraph)
graph <- ExampleTrees[[23]]
plot(graph, layout=layout_as_tree, vertex.label=V(graph)$c_call, 
     vertex.size=50, edge.arrow.mode=0, vertex.color="grey80")

# Permute annotations and plot new tree
g <- permuteLabels(graph, "c_call")
plot(g, layout=layout_as_tree, vertex.label=V(g)$c_call,
     vertex.size=50, edge.arrow.mode=0, vertex.color="grey80")