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Simple, rapid and accurate genotyping-by-sequencing from aligned whole genomes with ArrayMaker
journal contribution
posted on 2023-05-18, 17:27 authored by Willet, CE, Haase, B, Michael CharlestonMichael Charleston, Wade, CMWhole-genome sequencing has revolutionized the study of genetics. Genotyping-by-sequencing is now a viable method of genotyping, yet the bioinformatics involved can be daunting if not prohibitive for some laboratories. Here we present ArrayMaker, a user-friendly tool that extracts accurate single nucleotide polymorphism genotypes at pre-defined loci from whole-genome alignments and presents them in a standard genotyping format compatible with association analysis software and datasets genotyped on commercial array platforms. Using this tool, geneticists with only basic computing ability can genotype samples at any desired list of markers, facilitating genome-wide association analysis, fine mapping, candidate variant assessment, data sharing and compatibility of data sourced from multiple technologies.
History
Publication title
BioinformaticsVolume
31Issue
4Pagination
599-601ISSN
1367-4803Department/School
School of Natural SciencesPublisher
Oxford Univ PressPlace of publication
Great Clarendon St, Oxford, England, Ox2 6DpRights statement
Copyright 2014 The AuthorsRepository Status
- Restricted