EvoRAG: Evolutionary Rates Across Gradients

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

Author
Jason T. Weir
Date of publication
2014-07-08 07:38:38
Maintainer
Jason T. Weir <jason.weir@utoronto.ca>
License
GPL (>= 2)
Version
2.0

View on CRAN

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

Files in this package

EvoRAG
EvoRAG/NAMESPACE
EvoRAG/data
EvoRAG/data/bird.syllables.txt.gz
EvoRAG/data/bird.pitch.txt.gz
EvoRAG/R
EvoRAG/R/EvoRAG_Code.R
EvoRAG/MD5
EvoRAG/DESCRIPTION
EvoRAG/man
EvoRAG/man/EvoRAG-internal.Rd
EvoRAG/man/starting.values.Rd
EvoRAG/man/expectation.time.Rd
EvoRAG/man/model.test.sisters.Rd
EvoRAG/man/Profile.like.CI.Rd
EvoRAG/man/plotGradient.ci.Rd
EvoRAG/man/expectation.gradient.Rd
EvoRAG/man/sim.sisters.Rd
EvoRAG/man/parameter.reestimation.Rd
EvoRAG/man/power.test.Rd
EvoRAG/man/sisterContinuous.Rd
EvoRAG/man/EvoRAG-package.Rd
EvoRAG/man/bootstrap.test.Rd
EvoRAG/man/MScorrection.Rd
EvoRAG/man/EvoRAG-data.Rd
EvoRAG/man/TypeI.error.Rd