surfaceDemo

<p>This simulated tree and data set can be used to demonstrate the functionality of SURFACE. The vignette `surface_tutorial' demonstrates the use of the various functions included in the package using <code>surfaceDemo</code></p>

datasets

This data-driven phylogenetic comparative method fits stabilizing selection models to continuous trait data, building on the 'ouch' methodology of Butler and King (2004) <doi:10.1086/426002>. The main functions fit a series of Hansen models using stepwise AIC, then identify cases of convergent evolution where multiple lineages have shifted to the same adaptive peak. For more information see Ingram and Mahler (2013) <doi:10.1111/2041-210X.12034>.

Travis Ingram

surface

Fitting Hansen Models to Investigate Convergent Evolution

surfaceDemo function

<p>A list containing a tree in <code>phylo</code> format (<code>surfaceDemo$tree</code>), and a list <code>surfaceDemo$sim</code>, which contains trait data (<code>surfaceDemo$sim$data</code>) and the other features output by <code>surfaceSimulate</code>, including the generating Hansen model (<code>surfaceDemo$sim$fit</code>)</p>

surfaceDemo: Tree and Data for Demonstrating SURFACE

Description

Usage

Arguments

Format

References

Examples