get_bayesinfoHM: Get node specific componenets of Bayesian phylogenetic...

In diegosasso/ontobayes: Ontology-aware Bayesian Phylogenetic Information Analysis of Morphological Data

Get node specific componenets of Bayesian phylogenetic information, posterior probability, and internode confidence for all majority rule trees obtained from the analyses of data subsets defined by anatomy ontology terms.

Description

Get node specific componenets of Bayesian phylogenetic information, posterior probability, and internode confidence for all majority rule trees obtained from the analyses of data subsets defined by anatomy ontology terms.

Usage

get_bayesinfoHM(phy = phy, foldername = "all_partitions")

Arguments

foldername	character, the name of the Galax output folder with the results from ontobayes analysis.
phylo,	a reference phylogenetic species tree.

Value

A list of matrices with values of Bayesian phylogenetic information, posterior probability, and internode confidence for each node in the reference phylogenetic species tree.

Examples

## Not run: 
# Example: HAO or UBERON #
# Import a reference phylogenetic species tree #
reftree <- ape:::read.nexus(file = "./data/reftree.tre")

# Get node-specific components from each tree inferred from all different data subsets defined in ontobayes # 
M <- get_bayesinfoHM(phy = reftree, foldername = "all_partitions")

## End(Not run)

diegosasso/ontobayes documentation built on May 3, 2022, 10:23 p.m.