EvoRAG: Evolutionary Rates Across Gradients
Version 2.0

Uses maximum likelihood to estimate rates of trait evolution across environmental gradients.

Browse man pages Browse package API and functions Browse package files

AuthorJason T. Weir
Date of publication2014-07-08 07:38:38
MaintainerJason T. Weir <jason.weir@utoronto.ca>
LicenseGPL (>= 2)
Version2.0
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("EvoRAG")

Man pages

bootstrap.test: Estimate confidence intervals using bootstrap
EvoRAG-data: example data sets of avian sister pairs with trait data and a...
EvoRAG-internal: internal EvoRAG functions
EvoRAG-package: Evolutionary Rates Across Gradients
expectation.gradient: calculate the expected (i.e. mean) Euclidean distances for a...
expectation.time: calculate the expected (i.e. mean) Euclidean distances...
model.test.sisters: Fit evolutionary models for continuous trait data
MScorrection: Correct for finite sample size in Euclidean distances given...
parameter.reestimation: uses simulation to determine robustness of parameter...
plotGradient.ci: Plot evolutionary rates and their confidence regions across a...
power.test: performs a simulation based analysis of statistical power
Profile.like.CI: Estimate confidence intervals using profile likelihood
sim.sisters: simulate Euclidean distances for sister pair data under 10...
sisterContinuous: likelihood functions for continuous trait evolutionary models
starting.values: returns the null starting values used in model.test.sisters
TypeI.error: performs a simulation based analysis of type I error

Functions

EvoRAG Man page
EvoRAG-package Man page
MScorrection Man page Source code
MScorrection_MSwithin Man page
Profile.like.CI Man page Source code
TypeI.error Man page Source code
bird.pitch Man page
bird.syllables Man page
bootstrap.test Man page Source code
expectation.gradient Man page Source code
expectation.time Man page Source code
find.mle.sister Man page Source code
model.test.sisters Man page Source code
parameter.reestimation Man page Source code
plotGradient.ci Man page Source code
power.test Man page Source code
sim.sisters Man page Source code
simulation.analysis Man page Source code
sisterContinuous Man page Source code
sisterContinuous_logSpace Man page Source code
sisterContinuous_logSpace_profile_CI Man page Source code
starting.values Man page Source code

Files

NAMESPACE
data
data/bird.syllables.txt.gz
data/bird.pitch.txt.gz
R
R/EvoRAG_Code.R
MD5
DESCRIPTION
man
man/EvoRAG-internal.Rd
man/starting.values.Rd
man/expectation.time.Rd
man/model.test.sisters.Rd
man/Profile.like.CI.Rd
man/plotGradient.ci.Rd
man/expectation.gradient.Rd
man/sim.sisters.Rd
man/parameter.reestimation.Rd
man/power.test.Rd
man/sisterContinuous.Rd
man/EvoRAG-package.Rd
man/bootstrap.test.Rd
man/MScorrection.Rd
man/EvoRAG-data.Rd
man/TypeI.error.Rd
EvoRAG documentation built on May 19, 2017, 9:56 p.m.