siteTransitions: Compute transitions per branch

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

Description

Compute the number of expected transitions per site between states based on the marginal joint probabilities

Arguments

obj	rateModel object
subset	The site indices for which should be summed over to compute the total number of expected transitions (NOT IMPLEMENTED)
ncores	Number of cores to use

Value

A data.table where each is labeled by site index, parent allele, and child allele, and the number transitions over the whole tree

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