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Open Access Software

DiagHunter and GenoPix2D: programs for genomic comparisons, large-scale homology discovery and visualization

Steven B Cannon1*, Alexander Kozik2, Brian Chan2, Richard Michelmore2 and Nevin D Young13

Author Affiliations

1 Plant Biology Department, University of Minnesota, St Paul, MN 55108, USA

2 Department of Vegetable Crops, University of California, Davis, CA 95616, USA

3 Plant Pathology Department, University of Minnesota, St Paul, MN 55108, USA

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Genome Biology 2003, 4:R68  doi:10.1186/gb-2003-4-10-r68

Published: 19 September 2003

Abstract

The DiagHunter and GenoPix2D applications work together to enable genomic comparisons and exploration at both genome-wide and single-gene scales. DiagHunter identifies homologous regions (synteny blocks) within or between genomes. DiagHunter works efficiently with diverse, large datasets to predict extended and interrupted synteny blocks and to generate graphical and text output quickly. GenoPix2D allows interactive display of synteny blocks and other genomic features, as well as querying by annotation and by sequence similarity.