Identify and Visualize Significantly Responsive Branches in a
Phylogenetic Tree
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Documentation for package ‘SigTree’ version 1.10.6
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 |