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Bioinformatics Advance Access originally published online on August 19, 2004
Bioinformatics 2005 21(1):128-130; doi:10.1093/bioinformatics/bth481
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Bioinformatics vol. 21 issue 1 © Oxford University Press 2005; all rights reserved.

MCQTL: multi-allelic QTL mapping in multi-cross design

Marie-Françoise Jourjon , Sylvain Jasson , Jacques Marcel , Baba Ngom and Brigitte Mangin *

INRA, Unité de Biométrie et d’Intelligence Artificielle B.P. 27, 31326 Castanet-Tolosan Cedex, France

*To whom correspondence should be addressed.

Summary: The aim of the MCQTL software package is to perform QTL mapping in multi-cross designs. It allows the analysis of the usual populations derived from inbred lines and can link the families by assuming that the QTL locations are the same in all of them. Moreover, a diallel modelling of the QTL genotypic effects is allowed in multiple related families.

The implemented model is a linear regression model. A composite interval mapping and an iterative QTL mapping are implemented to deal with multiple QTL models. Marker cofactor selections by forward or backward stepwise methods are implemented as well as computation of threshold test value by permutation.

Availability: The program is available on request after signing a licence agreement; free of charge for academic and non-profit organizations at http://www.genoplante.org(Bioinformatics products).

Contact: contactbioinf{at}genoplante.com

Received on April 29, 2004; revised on June 28, 2004; accepted on July 27, 2004

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