GenMiner [1–3] 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.
The software can be downloaded here.
1. Martinez R, Pasquier C, Pasquier N: GenMiner: Mining Informative Association Rules from Genomic Data. In IEEE international conference on bioinformatics and biomedicine (bibm’07). Fremont, Silicon Valley, CA: 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.