Cytoscape is quite friendly to start using, it simply requires at least 2 columns denoting interactions (i.e. for each row, item in column A 'interacts' with column B in some meaningful way) and any optional values for mapping edge values (e.g. interaction strengths, confidence in interaction validity). As long as you have that information in a tsv file, you can use Cytoscape's import function
Hi man, you have no need to setup any plugin to finish what you want because you can just click File and choose Network and import your edge data. Than you can chose the from-node and the target-node.That's it,you can work out your network. And i am interested in how you construct your bayesian network,can you share me more details about the R code for i can just construct a co-expression network but no regulatory network. So thank you if you can share with me.