Combo: a whole genome comparative browser

• Published in: Bioinformatics 2006-07, Vol.22 (14), p.1782-1783
• Main Authors: Engels, Reinhard, Yu, Tamara, Burge, Chris, Mesirov, Jill P., DeCaprio, David, Galagan, James E.
• Format: Article
• Language: English
• Subjects: Algorithms; Base Sequence; Biological and medical sciences; Chromosome Mapping - methods; Computer Graphics; Database Management Systems; Databases, Genetic; Fundamental and applied biological sciences. Psychology; General aspects; Information Storage and Retrieval - methods; Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects); Molecular Sequence Data; Sequence Alignment - methods; Sequence Analysis, DNA - methods; Software; User-Computer Interface
• ISSN: 1367-4803; 1460-2059; 1367-4811
• DOI: 10.1093/bioinformatics/btl193

Combo is a comparative genome browser that provides a dynamic view of whole genome alignments along with their associated annotations. Combo provides two different visualization perspectives. The perpendicular (dot plot) view provides a dot plot of genome alignments synchronized with a display of genome annotations along each axis. The parallel view displays two genome annotations horizontally, synchronized through a panel displaying local alignments as trapezoids. Users can zoom to any resolution, from whole chromosomes to individual bases. They can select, highlight and view detailed information from specific alignments and annotations. Combo is an organism agnostic and can import data from a variety of file formats. Availability: Combo is integrated as part of the Argo Genome Browser which also provides single-genome browsing and editing capabilities. Argo is written in Java, runs on multiple platforms and is freely available for download at . Contact:[e-mail]