paleotree: Paleontological and Phylogenetic Analyses of Evolution
paleotree is an R library for analysing, time-scaling and simulating phylogenies of extinct/fossil lineages. In particular, most users are interested in the functions timePaleoPhy, bin_timePaleoPhy, cal3TimePaleoPhy and bin_cal3TimePaleoPhy, which time-scales cladograms of fossil taxa into dated phylogenies.
This package also contains a large number of likelihood functions for estimating sampling rates from different types of observables available from fossil record data.
The most recent public release of the code is on CRAN at:
http://cran.r-project.org/web/packages/paleotree/index.html
You can install the most recent public release version of paleotree in R using:
install.packages("paleotree")
The latest pre-release version of paleotree can be found at github:
https://github.com/dwbapst/paleotree
The most recent commit is currently: 
You can install this latest development version using the R function install_github in the package 'devtools':
library(devtools)
install_github("dwbapst/paleotree")
Once installed, you can check the version number of your paleotree install using the R function packageVersion:
packageVersion("paleotree")
As of 01/13/15, the paleotree repository was restructured so the package no longer sat within a subdirectory. An old directory composed of deprecated, previously public functions (more than a year old) was removed.
This code is authored by David Bapst and offered under CC0.
The current total number of downloads of the paleotree package from the RStudio CRAN mirror is: