LTT.plot                LTT.plot: Plots the lineages through time of a
                        set of phylogenetic trees.
LTT.plot.gen            LTT.plot.gen: Calculates the number of lineages
                        through time for each input tree, as well as
                        the average number of lineages over all trees.
TreeSim-package         TreeSim: Simulating Phylogenetic Trees
corsim                  corsim: Simulating the missing speciation
                        events in an incomplete phylogenies.
cuttree                 cuttree: Cutting off the tree to prune recent
                        branches.
getx                    getx: Calculating the vector of speciation /
                        transmission times and sampling times for a
                        phylogenetic tree.
sim.bd.age              sim.bd.age: Simulating birth-death trees of a
                        fixed age.
sim.bd.taxa             sim.bd.taxa: Simulating birth-death trees on a
                        fixed number of extant taxa.
sim.bd.taxa.age         sim.bd.taxa.age: Simulating birth-death trees
                        with a given age on a fixed number of extant
                        taxa.
sim.bdsky.stt           sim.bdsky.stt: Simulating sequentially sampled
                        birth-death, SIS, SIR or SIRS trees where birth
                        and death rates are changing through time.
sim.bdtypes.stt.taxa    sim.bdtypes.stt.taxa: Simulating multitype
                        birth-death trees with a fixed number of tips
                        sampled through time.
sim.genespeciestree     sim.genespeciestree: Simulating birth-death
                        species trees with nested coalescent gene
                        trees.
sim.genetree            sim.genetree: Simulating coalescent gene trees.
sim.gsa.taxa            sim.gsa.taxa: Sampling trees on n tips from
                        bigger trees.
sim.rateshift.taxa      sim.rateshift.taxa: Simulating trees
                        incorporating mass extinction events and rate
                        shifts.
