R: MCMC Algorithms for the Coalescent

# MCMC Algorithms for the Coalescent

## Documentation for package ‘coalescentMCMC’ version 0.4-4

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS

## Help Pages

AIC.coalescentMCMC | Run MCMC for Coalescent Trees
anova.coalescentMCMC | Run MCMC for Coalescent Trees
BIC.coalescentMCMC | Run MCMC for Coalescent Trees
cleanMCMCtrees | Managing List of Trees From MCMC
coalescentMCMC | Run MCMC for Coalescent Trees
dcoal | Density Functions of Some Time-Dependent Coalescent Models
dcoal.linear | Density Functions of Some Time-Dependent Coalescent Models
dcoal.step | Density Functions of Some Time-Dependent Coalescent Models
dcoal.time | Density Functions of Some Time-Dependent Coalescent Models
dcoal.time2 | Density Functions of Some Time-Dependent Coalescent Models
getLastTree | Managing List of Trees From MCMC
getMCMCstats | Managing List of Trees From MCMC
getMCMCtrees | Managing List of Trees From MCMC
logLik.coalescentMCMC | Run MCMC for Coalescent Trees
NeighborhoodRearrangement | Trees Operators for Running MCMC
plotTHETA | Plot THETA From coalescentMCMC Output
proba.coalescent | Probability of Coalescence
saveMCMCtrees | Managing List of Trees From MCMC
sim.coalescent | Coalescent Simulation and Visualisation
subset.coalescentMCMC | Subset MCMC Output
TipInterchange | Trees Operators for Running MCMC
treeOperators | Trees Operators for Running MCMC