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

Research output: Contribution to journalArticlepeer-review

Authors

Colleges, School and Institutes

External organisations

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

Abstract

UNLABELLED: 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

Details

Original languageEnglish
Pages (from-to)1026-8
Number of pages3
JournalBioinformatics
Volume23
Issue number8
Publication statusPublished - 15 Apr 2007

Keywords

  • Algorithms, Chromosome Mapping, Computer Graphics, Sensitivity and Specificity, Software, User-Computer Interface, Journal Article