FAQ

1. Who created iVUN?
2. What are the license terms for iVUN?
3. How to cite the iVUN software?
4. How can I obtain the source code?
5. Is there a mailing list?
6. How can I avoid Java out of memory exceptions?

1. Who created iVUN?
iVUN was created by Corinna Vehlow from VISUS(Visualization Research Center) at the University of Stuttgart in collaboration with Jan Hasenauer from CMB(Institute of Bioinformatics and Systems Biology) at the Helmholtz Zentrum München and Andrei Kramer from IST (Institute for Systems Theory and Automatic Control) at the University of Stuttgart. Contact information for the developers can be found here.
2. What are the license terms for iVUN?
iVUN is licensed under the GNU General Public License version 2. If you use iVUN in published work, we ask you to give proper citation (see below).
3. How to cite the iVUN software?
Please use one of the following citations:

C. Vehlow, J. Hasenauer, A. Kramer, J. Heinrich, N. Radde, F. Allgoewer, and D. Weiskopf. Uncertainty-aware visual analysis of biochemical reaction networks. In Proceedings of IEEE Symposium on Biological Data Visualization(Biovis), pages 91–98, 2012. PDF

C. Vehlow, J. Hasenauer, A. Kramer, A. Raue, S. Hug, J. Timmer, N. Radde, F. Theis, and D. Weiskopf. iVUN: interactive Visualization of Uncertain biochemical reaction Networks. In BMC Bioinformatics, 2013. PDF

4. How can I obtain the source code?
The latest development version can be downloaded here.
5. Is there a mailing list?
There are no mailing lists for users yet.
6. How can I avoid Java out of memory exceptions?
For datasets including large samples, you may use more than the preset amount of memory. Try setting the -Xmx parameter in the startup script to a higher value (e.g. -Xmx512m or -Xmx1024m). Alternatively, if iVUN does not start because you have limited memory available, you can also set a lower value.