QGene 4.0, an extensible Java QTL-analysis platform

Bioinformatics. 2008 Dec 1;24(23):2788-9. doi: 10.1093/bioinformatics/btn523. Epub 2008 Oct 21.


Of many statistical methods developed to date for quantitative trait locus (QTL) analysis, only a limited subset are available in public software allowing their exploration, comparison and practical application by researchers. We have developed QGene 4.0, a plug-in platform that allows execution and comparison of a variety of modern QTL-mapping methods and supports third-party addition of new ones. The software accommodates line-cross mating designs consisting of any arbitrary sequence of selfing, backcrossing, intercrossing and haploid-doubling steps that includes map, population, and trait simulators; and is scriptable.

Availability: Software and documentation are available at http://coding.plantpath.ksu.edu/qgene. Source code is available on request.

Publication types

  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Computational Biology
  • Crosses, Genetic
  • Inbreeding
  • Programming Languages
  • Quantitative Trait Loci*
  • Software*