alleHap: Allele Imputation and Haplotype Reconstruction from Pedigree Databases

Simulation of alphanumeric alleles, imputation of genetic missing data and reconstruction of non-recombinant haplotypes from pedigree databases in a deterministic way. Allelic simulations can be implemented taking into account many different factors (such as number of families, markers, alleles per marker, probability and proportion of missing genotypes, recombination rate, etc). Genotype imputation can be used either simulated datasets or loaded databases (in .ped file biallelic format). Haplotype reconstruction can be performed even with missing data because of alleHap, firstly imputes the genotypes. All this considering that each member (due to meiosis) should unequivocally have two alleles, one inherited from each parent.

Version: 0.9.2
Imports: abind, tools, stats, utils
Suggests: knitr
Published: 2015-10-05
Author: Nathan Medina-Rodriguez and Angelo Santana
Maintainer: Nathan Medina-Rodriguez <nathan.medina at>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation: no
CRAN checks: alleHap results


Reference manual: alleHap.pdf
Vignettes: alleHap vignette
Package source: alleHap_0.9.2.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
OS X Snow Leopard binaries: r-release: alleHap_0.9.2.tgz, r-oldrel: alleHap_0.7.2.tgz
OS X Mavericks binaries: r-release: alleHap_0.9.2.tgz
Old sources: alleHap archive