Identify and Visualize Significantly Responsive Branches in a Phylogenetic Tree

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Documentation for package ‘SigTree’ version 1.10.6

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

SigTree-package	Determine significantly responsive branches in phylogenetic trees
adonis.tree	Function to perform adonis test of independence on p-values from tests of multiple OTUs.
circularplot2	SigTree Other Functions
edge.colors	SigTree Other Functions
export.figtree	Function to export a 'NEXUS' file that can be opened in 'FigTree' to produce a plot of the phylogenetic tree with branches colored according to significance of families of p-values
export.inherit	Function to produce a CSV file with the p-value for each branch as well as a list of all of the tips in each branch's family
fishers	SigTree Other Functions
hartung	SigTree Other Functions
index.matrix	SigTree Other Functions
node_depthSigTree	SigTree Other Functions
node_depth_edgelengthSigTree	SigTree Other Functions
node_heightSigTree	SigTree Other Functions
node_height_cladoSigTree	SigTree Other Functions
num.edges	SigTree Other Functions
num.internal.nodes	SigTree Other Functions
num.tips	SigTree Other Functions
num.total.nodes	SigTree Other Functions
p.p2.ADJ.p1	SigTree Other Functions
p2.p1	Function to convert two-tailed p-values to one-tailed, for use by other SigTree functions.
plotphylo2	SigTree Other Functions
plotSigTree	Function to plot the phylogenetic tree in R with branches (tips) colored according to significance of families of p-values (tips' p-values)
result	SigTree Other Functions
R_init_SigTree	SigTree Other Functions
SigTree	Determine significantly responsive branches in phylogenetic trees
srt.pvalues	SigTree Other Functions
stouffers	SigTree Other Functions
tip.colors	SigTree Other Functions