alleleData: alleleData

In ndukler/epiAllele: Tests for signals of variable rates of evolution between gene classes and lineages for probabalistic alleles

Description

Contructs an object that holds the allele data and the phylogenetic tree

Usage

alleleData(data, tree, siteInfo = NULL, logProb = FALSE)

Arguments

data	A list of matricies, where each element in the list is a species, each column in a matrix is an allele, and each row is a site
tree	The tree corresponding the the list of allele data passed in. Tip names must match list names.
siteInfo	A data.frame containing classification information about each site, where each column characteristic, and each site is a row. Defaults to assuming all sites have the same info.
logProb	TRUE/FALSE indicating whether the passed probabilities are in log space (default=FALSE)

Value

an alleleData object

ndukler/epiAllele documentation built on May 5, 2019, 4:50 p.m.