ChromoScan
ChromoScan is an implementation of a genome-based scan statistic that detects genomic regions, which are statistically significant for targeted measurements, such as genetic associations with disease, gene expression profiles, DNA copy number variations, as well as other genome-based measurements.
A Java graphic user interface (GUI) is provided to allow users to select appropriate data transformations and thresholds for defining the significant events.
ChromoScan is freely available at this adress.
References
Sun YV, Jacobsen DM, Kardia SL. ChromoScan: a scan statistic application for identifying chromosomal regions in genomic studies. Bioinformatics. 2006 Dec 1;22(23):2945-7. PMID: 17032677