CytoGEDEVO is a tool for visual and human-assisted network alignment. It aligns pairs of networks, where the result is a one-to-one node mapping.

Alignments are fully resumable, i.e. parameters can be adjusted anytime and the alignment resumed with the new parameters. Expert knowledge can be incorporated by the user by fixating node pairs.

CytoGEDEVO is not limited to network topology and can make use of an unlimited number of externally supplied scores, without imposing restrictions on the score type (that means you can just throw BLAST E-values or Bit-scores or whatever at it and it will work).

Also allows importing result files generated by other aligners.

Command-line versions are available on our website.

Note: CytoGEDEVO runs on Windows, Linux, and Mac OSX; both x86 and x64. If you need support for other operating systems or architectures, ask.

If you encounter any issues or bugs, please report them on our bug tracker.

Citation: Malek M, Ibragimov R, Albrecht M, Baumbach J (2015) CytoGEDEVO - Global alignment of biological networks with Cytoscape. Bioinformatics. 2015 (in press). [link]

• Maximilian Malek (Institute of Molecular Biotechnology, Graz University of Technology, Graz, Austria)
• Rashid Ibragimov (Max Planck Institute for Informatics, Saarbrücken, Germany)
• Mario Albrecht
• Jan Baumbach (Department of Mathematics and Computer Science, University of Southern Denmark, Odense, Denmark)