| ancestrallineages {convevol} | R Documentation |
Extracts lineages leading to two tips, t1 and t2, from their most recent common ancestor.
Description
Extracts lineages leading to two tips, t1 and t2, from their most recent common ancestor.
Usage
ancestrallineages(phyl, phendata, t1, t2)
Arguments
phyl |
The phylogeny of interest in phylo format |
phendata |
Phenotypic data for all tips |
t1 |
The first tip of interest |
t2 |
The second tip of interest |
Details
None
Value
A list containing two matrices. Each matrix corresponds to a tip. The matrix consists of reconstructed ancestral values for all nodes leading from the mrca of both tips to the tip.
References
Paradis, E., J. Claude, and K. Strimmer (2004) APE: Analyses of phylogenetics and evolution in R langauge. Bioinformatics, 20, 289-290.
Revell, L. J. (2012) phytools: An R package for phylogenetic comparative biology (and other things). Methods Ecol. Evol. 3 217-223.
Stayton, C.T. (2015). The definition, recognition, and interpretation of convergent evolution, and two new measure for quantifying and assessing the significance of convergence. Evolution 69:2140-2153.
Examples
phyl<-rtree(10)
phendata<-fastBM(phyl,nsim=2)
answer<-ancestrallineages(phyl,phendata,"t1","t2")