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Additionally, CGHAnalyzer employs a host of algorithms for microarray analysis that include hierarchical clustering and class differentiation.<\/jats:p><jats:p>Availability: CGHAnalyzer, the accompanying manual, documentation and sample data are available for download at http:\/\/acgh.afcri.upenn.edu. This is a Java-based application built in the framework of the TIGR MeV that can run on Microsoft Windows, Macintosh OSX and a variety of Unix-based platforms. It requires the installation of the free Java Runtime Environment 1.4.1 (or more recent) (http:\/\/www.java.sun.com).<\/jats:p><jats:p>Contact: \u00a0weberb@mail.med.upenn.edu<\/jats:p>","DOI":"10.1093\/bioinformatics\/bti500","type":"journal-article","created":{"date-parts":[[2005,5,20]],"date-time":"2005-05-20T00:24:12Z","timestamp":1116548652000},"page":"3308-3311","source":"Crossref","is-referenced-by-count":27,"title":["CGHAnalyzer: a stand-alone software package for cancer genome analysis using array-based DNA copy number data"],"prefix":"10.1093","volume":"21","author":[{"given":"Adam A.","family":"Margolin","sequence":"first","affiliation":[]},{"given":"Joel","family":"Greshock","sequence":"additional","affiliation":[]},{"given":"Tara L.","family":"Naylor","sequence":"additional","affiliation":[]},{"given":"Yael","family":"Mosse","sequence":"additional","affiliation":[]},{"given":"John M.","family":"Maris","sequence":"additional","affiliation":[]},{"given":"Graham","family":"Bignell","sequence":"additional","affiliation":[]},{"given":"Alexander I.","family":"Saeed","sequence":"additional","affiliation":[]},{"given":"John","family":"Quackenbush","sequence":"additional","affiliation":[]},{"given":"Barbara L.","family":"Weber","sequence":"additional","affiliation":[]}],"member":"286","published-online":{"date-parts":[[2005,5,19]]},"reference":[{"key":"2023051612004289400_B1","unstructured":"Awad, I.A.B. 2004Caryoscope. , Stanford, CA Stanford University"},{"key":"2023051612004289400_B2","doi-asserted-by":"crossref","unstructured":"Beheshti, B., et al. 2003Chromosomal localization of DNA amplifications in neuroblastoma tumors using cDNA microarray comparative genomic hybridization. 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