Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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Record number 507052
Title PediHaplotyper : software for consistent assignment of marker haplotypes in pedigrees
Author(s) Voorrips, Roeland E.; Bink, Marco C.A.M.; Kruisselbrink, Johannes W.; Koehorst-van Putten, Herma J.J.; Weg, Eric van de
Source Molecular Breeding 36 (2016). - ISSN 1380-3743
DOI https://doi.org/10.1007/s11032-016-0539-y
Department(s) WUR PB Kwantitatieve Aspecten
PE&RC
Biometris (PPO/PRI)
Sports Centre Algemeen
WUR PB Siergewassen, Tissue Culture
WUR PB Biodiversiteit en Genetische Variatie
EPS
Publication type Refereed Article in a scientific journal
Publication year 2016
Keyword(s) Haploblock - Haplotyping - Pedigree - SNP
Abstract

In the study of large outbred pedigrees with many founders, individual bi-allelic markers, such as SNP markers, carry little information. After phasing the marker genotypes, multi-allelic loci consisting of groups of closely linked markers can be identified, which are called “haploblocks”. Here, we describe PediHaplotyper, an R package capable of assigning consistent alleles to such haploblocks, allowing for missing and incorrect SNP data. These haploblock genotypes are much easier to interpret by the human investigator than the original SNP data and also allow more efficient QTL analyses that require less memory and computation time.

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