COMPAM: Visualization of combining pairwise alignments for multiple genomes

Do Hoon Lee, Jeong Hyeon Choi, Mehmet M. Dalkilic, Sun Kim

Research output: Contribution to journalArticle

6 Scopus citations

Abstract

Summary: COMPAM is a tool for visualizing relationships among multiple whole genomes by combining all pairwise genome alignments. It displays shared conserved regions (blocks) and where these blocks occur (edges) as block relation graphs which can be explored interactively. An unannotated genome, e.g. can then be explored using information from well-annotated genomes, COG-based genome annotation and genes. COMPAM can run either as a stand-alone application or through an applet that is provided as service to PLATCOM, a toolset for whole genome comparative analysis, where a wide variety of genomes can be easily selected. Features provided by COMPAM include the ability to export genome relationship information into file formats that can be used by other existing tools.

Original languageEnglish (US)
Pages (from-to)242-244
Number of pages3
JournalBioinformatics
Volume22
Issue number2
DOIs
StatePublished - Jan 15 2006
Externally publishedYes

ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

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