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URL: http://www.broad.mit.edu/cancer/software/genecluster2/gc2.html
Proper Citation: GeneCluster 2: An Advanced Toolset for Bioarray Analysis (RRID:SCR_008446)
Description: THIS RESOURCE IS NO LONGER IN SERVICE, documented on July 17, 2013. A software package for analyzing gene expression and other bioarray data, giving users a variety of methods to build and evaluate class predictors, visualize marker lists, cluster data and validate results. GeneCluster 2.0 greatly expands the data analysis capabilities of GeneCluster 1.0 by adding supervised classification, gene selection, class discovery and permutation test methods. It includes algorithms for building and testing supervised models using weighted voting (WV) and k-nearest neighbor (KNN) algorithms, a module for systematically finding and evaluating clustering via self-organizing maps, and modules for marker gene selection and heat map visualization that allow users to view and sort samples and genes by many criteria. It enhances the clustering capabilities of GeneCluster 1.0 by adding a module for batch SOM clustering, and also includes a marker gene finder based on a KNN analysis and a visualization module. GeneCluster 2.0 is a stand-alone Java application and runs on any platform that supports the Java Runtime Environment version 1.3.1 or greater.
Synonyms: GeneCluster 2
Resource Type: data processing software, software toolkit, data analysis software, software resource, software application
Keywords: gene, cluster, software, analysis, expression, bioarray, data, class, predictor, visualization, marker, classification, algorithm, module, java, environment
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