TimeMachine: Time Machine
Version 1.2

Implements the Time Machine, a simulation approach for stochastic trees.

Browse man pages Browse package API and functions Browse package files

AuthorGianluca Campanella [aut, cre], Marc Chadeau-Hyam [aut], Maria De Iorio [ctb], Ajay Jasra [ctb]
Date of publication2014-01-13 12:59:44
MaintainerGianluca Campanella <gianluca@campanella.org>
LicenseGPL (>= 2)
Version1.2
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("TimeMachine")

Man pages

full.transitions: Full Transition Matrix Computation
mu.mle: Maximum-Likelihood Estimation of the Mutation Rate
pdm: Example Dataset
pophistory: History of Population Size
sample.pop: Sample Populations from the Wright-Fisher Model
stationary.dist: Compute Stationary Distribution of a Markov Chain
time-dist: Time to Coalescent Event or Mutation
tm: Log-likelihood Estimation using the Time Machine

Functions

density.tm Man page Source code
full.transitions Man page Source code
mean.tm Man page Source code
mu.mle Man page Source code
pdm Man page
pophistory Man page
pophistory.tm Man page Source code
print.tm Man page Source code
quantile.tm Man page Source code
sample.pop Man page Source code
stationary.dist Man page Source code
summary.tm Man page Source code
time-dist Man page
tm Man page Source code
ttc Man page
ttc.tm Man page Source code
ttm Man page
ttm.tm Man page Source code

Files

inst
inst/NEWS.Rd
inst/doc
inst/doc/algorithm.Rnw
inst/doc/algorithm.pdf
src
src/Makevars
src/utils.c
src/utils.h
src/tm.c
src/tm.h
NAMESPACE
data
data/pdm.rda
R
R/tm.R
vignettes
vignettes/algorithm.Rnw
README.md
MD5
build
build/vignette.rds
DESCRIPTION
man
man/time-dist.Rd
man/tm.Rd
man/sample.pop.Rd
man/mu.mle.Rd
man/stationary.dist.Rd
man/pophistory.Rd
man/full.transitions.Rd
man/pdm.Rd
TimeMachine documentation built on May 19, 2017, 11:43 p.m.