BMhyd: PCM for Hybridization

The BMhyd package analyzes the phenotypic evolution of species of hybrid origin on a phylogenetic network. This package can detect the hybrid vigor effect, a burst of variation at formation, and the relative portion of heritability from its parents. Parameters are estimated by maximum likelihood technique. Users need to enter comparative data set and phylogenetic networks in eNewick format. The full model contains five parameters: the overall mean, the overall variance, the hybrid vigor, the hybrid variation and the proportion of heritability. We report four different models. All fix the heritability to equal contributions from each parent. Model 1 fixes the hybrid vigor and burst of variation at formation at 1 and 0; respectively. Model 2 fixes the hybrid vigor at 1 but allow the burst of variation at formation to vary; model 3 allows hybrid vigor to vary but fixes burst of variation at origin; and model 4 allows both to vary. Those models are compared under sample size correction Akaike Information Criterion (AICc). The model averaged parameter estimates are reported.

Version: 1.2-2
Imports: corpcor, numDeriv
Published: 2014-02-15
Author: Dwueng-Chwuan Jhwueng
Maintainer: Dwueng-Chwuan Jhwueng <djhwueng at>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation: no
CRAN checks: BMhyd results


Reference manual: BMhyd.pdf
Package source: BMhyd_1.2-2.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
OS X Snow Leopard binaries: r-release: BMhyd_1.2-2.tgz, r-oldrel: BMhyd_1.2-2.tgz
OS X Mavericks binaries: r-release: BMhyd_1.2-2.tgz