PCM for Hybridization

Documentation for package ‘BMhyd’ version 1.2-8

AdaptiveConfidenceIntervalSampling	Confidence interval under adaptive cluster sampling technique
AdjustForDet	Adjust the phylogeny
AICc	AICc
AkaikeWeight	Akaike weight
AttachHybridsToDonor	Attach hybrids to the donor species
BMhyd	Comparative method for studying hyridization using Brownian motion for trait evolution
CalculateLikelihood	Calculate the likelihood value for the model
cichlid	Cichlid data from Kobmuller et al. 2007
ContourFromAdaptiveSampling	Contour maps
DetPass	determinant of the matrix
GenerateValues	Generate parameter values
GetAncestor	Identify the ancestor
GetClade	Get clade from the tree
GetMeansModified	The species means for the network model
GetVModified	Variance covariance matrix for the network model
LumpIntoClades	Lump into clades
nicotiana	nicotiana data
PlotNetwork	Phylogenetic Network Plot
Plot_ConvexHull	Convex hull
SimulateNetwork	Simulate phylogenetic network
SimulateTipData	Simulate data on a network