getConvergent: Find convergent species

In dinaIssakova/rgenesconverged: A Package for Estimating Probability of Convergent Evolution from Genomic Data

Description

For a given species, find others in the tree that satisfy the conditions of convergent evolution at a certain position with a less than 0.05 chance of this having occured by chance.

Usage

getConvergent(tree, phydat, spe, pos, type = c("abs, score"), t = NA)

Arguments

tree	A phylogenetic tree
phydat	An object of class phydat
spe	The species to compare others in the tree to
pos	The position at which to compare the genes
type	Type of analysis: 'abs' for basic model or 'score' for by convergence score model
t	threshold

Value

A vector of species names which satisfy the conditions listed above.

Examples

## Not run: 
getConvergent(tree, primates, "Human", 1, 5)

## End(Not run)

dinaIssakova/rgenesconverged documentation built on Jan. 7, 2020, 4:25 p.m.