expoTree: Calculate density dependent likelihood of a phylogenetic tree

Calculates the density dependent likelihood of a phylogenetic tree. It takes branching and sampling times as an argument and integrates the likelihood function over the whole tree.

AuthorGabriel E Leventhal, partly adapted from MATLAB code by Awad H. Al-Mohy and using the routines DLNAC1 and DLARPC by Sheung Hun Cheng, and DLAPST from ScaLAPACK.
Date of publication2013-09-03 14:12:55
MaintainerGabriel E Leventhal <gabriel@leventhal.ch>
LicenseBSD_3_clause + file LICENCE
Version1.0.1

View on CRAN

Files

expoTree
expoTree/src
expoTree/src/Makevars
expoTree/src/expoTree.h
expoTree/src/theta_taylor_half.h
expoTree/src/expo.c
expoTree/src/expmv.c
expoTree/src/expoTree.c
expoTree/src/expmv.h
expoTree/src/simulate_trees.cpp
expoTree/src/RsimTrees.cpp
expoTree/src/stdeg.c
expoTree/src/expo_type.h
expoTree/src/expomv.c
expoTree/src/dlapst.f
expoTree/src/theta_taylor_single.h
expoTree/src/normAm.c
expoTree/src/simulate_trees.h
expoTree/src/dlarpc.f
expoTree/src/theta_taylor.h
expoTree/src/expo.h
expoTree/src/expomv.h
expoTree/src/dlacn1.f
expoTree/NAMESPACE
expoTree/R
expoTree/R/plotLTT.R expoTree/R/sim.epi.R expoTree/R/node.age.R expoTree/R/get.tips.R expoTree/R/epi2tree.R expoTree/R/expoTree.optim.R expoTree/R/ape2time.R expoTree/R/runExpoTree.R expoTree/R/epi.coords.R expoTree/R/get.age.R expoTree/R/expoTreeSurvival.R expoTree/R/zzz.R expoTree/R/infExpoTree.R
expoTree/README.md
expoTree/MD5
expoTree/DESCRIPTION
expoTree/LICENCE
expoTree/ChangeLog
expoTree/man
expoTree/man/runExpoTree.Rd expoTree/man/sim.epi.Rd expoTree/man/epi2tree.Rd expoTree/man/plotLTT.Rd expoTree/man/infExpoTree.Rd expoTree/man/ape2time.Rd expoTree/man/expoTree.optim.Rd expoTree/man/expoTree-package.Rd
expoTree/.Rinstignore

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