permuteLabels: Permute the node labels of a tree

In alakazam: Immunoglobulin Clonal Lineage and Diversity Analysis

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))

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.

Value

A modified igraph object with vertex annotations permuted.

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")

alakazam documentation built on Sept. 30, 2023, 9:07 a.m.