'HaploBlocker' is an R-package to compute a haplotype block library according to our paper by Pook T, Schlather M, de los Campos G, Schoen CC, Simianer H (2018) HaploBlocker: Creation of subgroup specific haplotype blocks and libraries. The publication is currently available on biorvix (https://www.biorxiv.org/content/early/2018/06/19/339788)
Download software: https://github.com/tpook92/HaploBlocker
'synbreed' is an open-source R package for deriving genome-based predictions from high-throughput genotyping and large-scale phenotyping data. It contains a comprehensive collection of functions required to fit and crossvalidate genomic predictions models.
Wimmer V, Albrecht T, Auinger HJ, Schön CC (2012) synbreed: A framework for the analysis of genomic prediction data using R. Bioinformatics 28:2086-2087
Download from CRAN