Estimating birth and death rates based on phylogenies

Documentation for package ‘TreePar’ version 2.3

TreePar-package	Estimating birth and death rates based on phylogenies
bd.densdep.optim	bd.densdep.optim: Estimating speciation and extinction rates in phylogenies under a density-dependent speciation model
bd.shifts.optim	bd.shifts.optim: Estimating speciation and extinction rate changes and mass extinction events in phylogenies
bd.shifts.plot	bd.shifts.plot plots the diversification rate estimates obtained with the function bd.shifts.optim
bdsky.stt.optim	bdsky.stt.optim: Estimating piecewise constant birth and death rates in phylogenies with sequentially sampled tips.
bdtypes.stt.lik	bdtypes.stt.lik: calculates the likelihood of a tree under a 2-type birth-death model.
get.groups	get.groups generates input for bd.shifts.optim when groups!=0
treemrcashifts	treemrcashifts: calculates the likelihood of a tree
TreePar	Estimating birth and death rates based on phylogenies