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| EvoRAG-package | Evolutionary Rates Across Gradients |
| bird.pitch | example data sets of avian sister pairs with trait data and a gradient |
| bird.syllables | example data sets of avian sister pairs with trait data and a gradient |
| bootstrap.test | Estimate confidence intervals using bootstrap |
| EvoRAG | Evolutionary Rates Across Gradients |
| expectation.gradient | calculate the expected (i.e. mean) Euclidean distances for a gradient model |
| expectation.time | calculate the expected (i.e. mean) Euclidean distances through time given a rate of evolution, Beta. |
| find.mle.sister | internal EvoRAG functions |
| model.test.sisters | Fit evolutionary models for continuous trait data |
| MScorrection | Correct for finite sample size in Euclidean distances given known variances in each sample |
| MScorrection_MSwithin | internal EvoRAG functions |
| parameter.reestimation | uses simulation to determine robustness of parameter estimates under a model |
| plotGradient.ci | Plot evolutionary rates and their confidence regions across a gradient |
| 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 evolutionary models |
| simulation.analysis | internal EvoRAG functions |
| sisterContinuous | likelihood functions for continuous trait evolutionary models |
| sisterContinuous_logSpace | internal EvoRAG functions |
| sisterContinuous_logSpace_profile_CI | internal EvoRAG functions |
| starting.values | returns the null starting values used in model.test.sisters |
| TypeI.error | performs a simulation based analysis of type I error |