GenMiner

Summary

GenMiner is a Java implementation of the GenMiner algorithm for mining equivalence classes and minimal non-redundant association rule from gene expression data. This implementation integrates the R implementation of the Normalized Discretization method (NorDi) to preprocess gene expression data and the Java implementation of the JClose algorithm (JClose) to extract equivalence classes and minimal non-redundant association rules from these data.

Availibility

The software is available from KEIA softwares repository and the Virtual Biology Lab of the University of Nice.

Related publications

1. Martinez R, Pasquier C, Pasquier N: GenMiner: Mining Informative Association Rules from Genomic Data. In proceedings of the 2007 IEEE International Conference on Bioinformatics and Biomedicine (BIBM’07). Fremont, Silicon Valley, CA, USA: IEEE; 2007:15–22.

2. Martinez R, Pasquier N, Pasquier C: GenMiner: mining non-redundant association rules from integrated gene expression data and annotations. Bioinformatics (Oxford, England) 2008, 24:2643–4.

3. Martinez R, Pasquier N, Pasquier C: Mining Association Rule Bases from Integrated Genomic Data and Annotations (extended version). Lecture Notes in Bioinformatics 2009, 5488:78–90.