sidavad / pedigreer

R functions related to pedigrees

pedigreeR

The pedigreeR package offers a suit of functions for pedigree analyses, including: sorting and editing pedigree data, computing inbreeding, additive relationships and functions of it (e.g., cholesky decomposistions, inverse of a numerator relationship matrix, etc.). The package was originally co-developed by Douglas M. Bates and Ana I. Vazquez and was incorporated in the lme4 R-package. Recently, pedigreeR evolved to an stand-alone package. We have added new features for analysis of data from self-pollination.

Developers: Ana I. Vazquez & Douglas M. Bates.

Contributors: Paulino Perez-Rodriguez & Gustavo de los Campos.

###Installing pedigreeR from GitHub

#R functions related to pedigrees
install.packages(pkg='devtools',repos='https://cran.r-project.org/')  #1# install devtools
library(devtools)                                                     #2# load the library
install_git('https://github.com/Rpedigree/pedigreeR/')                #3# install pedigreeR from GitHub

Examples

1. Completing and sorting a pedigree.
2. Computing inbreeding, additive relationships and funcitons of it.
3. Fiting pedigree mixed effects models using pedigreeR and lmer.
4. Pedigree analyses for self-polinated species.
5. Cross-validation analyses with pedigreeR and lmer.