Hi Anand, I am not exactly sure as to the status of the hypergraph package, but I am confused as to why you want to use a hypergraph to represent your figure. To me, what you have done is actually a better pictorial representation in that you use edge labels to index the reactions. Hypergraphs are a generalization of graphs in that the hyperedges can have more than 2 elements, but from what I can see in both your hypergraph and bipartite graph, the easiest and least confusing way to represent your reactions is to use edge labels and not hyperedges since it clearly demonstrates the directionality of your reactions, a fact that would seem to be lost in using hyperedges. But maybe I am not understanding your use case very well. Tony On Tue, Sep 29, 2009 at 11:58 PM, Anand Gavai <a.gavai@few.vu.nl> wrote: > Dear Community, > > We are working on reaction networks representing metabolites and reactions, > to display such a network we use bipartite graphs representing metabolites > and reactions. However to visualize and understand them is a bit difficult > from a biologist perspective. > > So was wondering if there is some effort going in this regard on the > implementation of a hypergraph as shown in "C" of the attached file. There > was an initiative few years back on the "hypergraph" package, but I guess > the development has stopped!!. > > Any information in this regard will be of great help. > > > > Thanks and Regards, > > > > Anand > > > > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > [[alternative HTML version deleted]]

Hi Anand, Anand Gavai wrote: > Dear Community, > > We are working on reaction networks representing metabolites and reactions, > to display such a network we use bipartite graphs representing metabolites > and reactions. However to visualize and understand them is a bit difficult > from a biologist perspective. > > So was wondering if there is some effort going in this regard on the > implementation of a hypergraph as shown in "C" of the attached file. There > was an initiative few years back on the "hypergraph" package, but I guess > the development has stopped!!. slowed down. Did you try to render those graphs? I did not see anything that could not be done with Rgraphviz, pretty much as it is now. best wishes Robert > > Any information in this regard will be of great help. > > > > Thanks and Regards, > > > > Anand > > > > > > -------------------------------------------------------------------- ---- > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor