Gepard

https://academic.oup.com/view-large/figure/1970702/btm039f1.jpeg

Methods

linear single view single scale single focus contiguous no abstraction linear orthogonal arrangement between interconnection segment contiguous type segment sparse type

Tool

Access Format standalone app
Supported Files fasta
License MIT
Tool name

Gepard
Tool Link http://mips.gsf.de/services/analysis/gepard
Documentation https://github.com/univieCUBE/gepard/blob/master/tutorial.html

Paper

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

Krumsiek J, Arnold R, Rattei T. Gepard: a rapid and sensitive tool for creating dotplots on genome scale. Bioinformatics. academic.oup.com; 2007;23: 1026–1028.

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