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Bioinformatics. 2007 Apr 15;23(8):1026-8. Epub 2007 Feb 19.

Gepard: a rapid and sensitive tool for creating dotplots on genome scale.

Author information

  • 1Institute for Bioinformatics (MIPS), GSF National Research Center for Environment and Health, Neuherberg, Germany. krumsiek@in.tum.de

Abstract

Gepard provides a user-friendly, interactive application for the quick creation of dotplots. It utilizes suffix arrays to reduce the time complexity of dotplot calculation to Theta(m*log n). A client-server mode, which is a novel feature for dotplot creation software, allows the user to calculate dotplots and color them by functional annotation without any prior downloading of sequence or annotation data.

AVAILABILITY:

Both source codes and executable binaries are available at http://mips.gsf.de/services/analysis/gepard

PMID:
17309896
[PubMed - indexed for MEDLINE]
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