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Bioinformatics Advance Access published online on August 19, 2004
Bioinformatics, doi:10.1093/bioinformatics/bth481
Bioinformatics © Oxford University Press 2004; all rights reserved
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Received April 29, 2004
Revised June 28, 2004
Accepted July 27, 2004

Applications note

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

Marie-Françoise Jourjon 1, Sylvain Jasson 1, Jacques Marcel 1, Baba Ngom 1, Brigitte Mangin 1*

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

* To whom correspondence should be addressed. E-mail: contactbioinf{at}genoplante.com.


  Abstract

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 them. Moreover, a diallel modelling of the QTL genotypic effects is allowed in multiple related families.

The implemented model is a regression linear model. A composite interval mapping and an iterative QTL mapping are implemented to deal with multiple QTL model. 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 organization. http://www.genoplante.org (Bioinformatics products).


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