R/qtl: high-throughput multiple QTL mapping | Zendy

Danny Arends | Zendy; Pjotr Prins | Zendy; Ritsert C. Jansen | Zendy; Karl W. Broman | Zendy

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R/qtl: high-throughput multiple QTL mapping

Author(s) -

Danny Arends,

Pjotr Prins,

Ritsert C. Jansen,

Karl W. Broman

Publication year - 2010

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btq565

Subject(s) - quantitative trait locus , family based qtl mapping , inclusive composite interval mapping , computer science , software , biology , genetics , gene mapping , gene , operating system , chromosome

R/qtl is free and powerful software for mapping and exploring quantitative trait loci (QTL). R/qtl provides a fully comprehensive range of methods for a wide range of experimental cross types. We recently added multiple QTL mapping (MQM) to R/qtl. MQM adds higher statistical power to detect and disentangle the effects of multiple linked and unlinked QTL compared with many other methods. MQM for R/qtl adds many new features including improved handling of missing data, analysis of 10,000 s of molecular traits, permutation for determining significance thresholds for QTL and QTL hot spots, and visualizations for cis-trans and QTL interaction effects. MQM for R/qtl is the first free and open source implementation of MQM that is multi-platform, scalable and suitable for automated procedures and large genetical genomics datasets.

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