TimeMachine

The TimeMachine is a computationally efficient R implementation of the simulation approach for stochastic trees by the same name proposed by Jasra, De Iorio, and Chadeau-Hyam.

In general, the simulation of genealogical trees backwards in time (from observations up to the most recent common ancestor) is hindered by the fact that, while approaching the root of the tree, coalescent events become rarer, with a corresponding increase in computation time. The Time Machine tackles this issue by stopping the simulation of the tree before reaching the MRCA and correcting for the induced bias.

Installation

The latest stable version of the package is available from CRAN, and can be easily installed using install.packages.