QTL IciMapping Version 4.2

QTL IciMapping: Integrated Software for Building Genetic Linkage Maps and Mapping Quantitative Trait Genes

Current version: V4.2; Released 12 July 2019;Updated 20 September 2019.

Version history: v1.0 released February 2007; v1.4 released June 2007; v2.0 released November 2007; v2.1 released August 2008; v2.2 released December 2008; v3.0 released September 2010; v3.1 released May 2011; v3.2 released April 2012; v3.3 released July 2013; v4.0 released May 2014; v4.1, released January 2016.

What’s new in version 4.2? (1) In functionality AOV, genotype by environment stability analysis was implemented. Unbalanced data (or phenotypic data with missing) can also be analyzed. (2) A new functionality was added to convert the SNP genotypic data to the software format, which was called SNP, and listed as the second functionality of the software. By using the SNP functionality, genotypes AA, TT, CC, GG, AT, AC, AG, TC, TG and GT will be converted to A, H, B, X which are required by the software. Users need to provide SNP genotypes of the two inbred parents to use this functionality. (3) In functionality MAP, the estimated recombination frequency and LOD score were recorded in a temporary external file, in order to increase the capability to handle the large number of markers. In current version, the maximum number of markers can reach 20,000 to 40,000. For markers more than 10,000, we suggest to use functionality BIN to remove the redundancy. (4) In functionality MAP and functionality CMP, ordering algorithm was optimized. (5) Both 32-bit and 64-bit versions were provided.

Technical development of QTL IciMapping: The software is project based, where kernel modules for building linkage maps were written by C#, those for QTL mapping was written by Fortran 90/95, and the interface was written by C#. It runs on Windows XP/Vista/7/10, with .NET Framework 4.0.

Contacts: wangjiankang@caas.cn; lihuihui@caas.cn; zhangluyan@caas.cn; menglei@caas.cn

Download the software

Download Users’ Manual (also included in the software)