convertTreeData | Utilities for Formatting Objects for SURFACE Analysis |
getAIC | Akaike's Information Criterion for SURFACE Models |
getBranchTimes | Extract Branching Times from an 'ouch' Tree |
ouchDescendants | Obtain Descendants from an 'ouch' Tree |
propRegMatch | Similarity of Two Hansen Models |
repaint | Paint the Branches of a Tree |
runSurface | Run All Steps of a SURFACE Analysis |
startingModel | Create an Initial Model for a SURFACE Analysis |
surfaceAICPlot | Plot the AIC Throughout a SURFACE Analysis |
surfaceBackward | Collapsing Convergent Regimes in a Hansen Model |
surfaceDemo | Tree and Data for Demonstrating SURFACE |
surfaceForward | Adding Regimes to a Hansen Model |
surface-package | Fitting Hansen Models to Investigate Convergent Evolution |
surfaceSimulate | Simulate Data for SURFACE |
surfaceSummary | Summarize SURFACE Output |
surfaceTreePlot | Visualize Results of a SURFACE Analysis |
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