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Bioinformatics. 2010 Dec 1;26(23):2990-2. doi: 10.1093/bioinformatics/btq565. Epub 2010 Oct 21.

R/qtl: high-throughput multiple QTL mapping.

Author information

1
Groningen Bioinformatics Centre, University of Groningen, Groningen, The Netherlands.

Abstract

MOTIVATION:

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.

AVAILABILITY:

R/qtl is free and open source multi-platform software for the statistical language R, and is made available under the GPLv3 license. R/qtl can be installed from http://www.rqtl.org/. R/qtl queries should be directed at the mailing list, see http://www.rqtl.org/list/.

CONTACT:

kbroman@biostat.wisc.edu.

PMID:
20966004
PMCID:
PMC2982156
DOI:
10.1093/bioinformatics/btq565
[Indexed for MEDLINE]
Free PMC Article
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