Hi to all. I would like to plot a network of interacting genes. I performed Mutual Information between genes starting from gene expression values, so my adjacency matrix is composed of mutual information values. Now I would like to have a visualization of the interactions. I tried to use Cytoscape or R igraph or RCytoscape but all this methods transform the adjacency matrix in a boolean matrix. Is there a way or a tool that does not transform the adj matrix in a boolean one? This because according to the mutual information value I would like to have different lengths in edges. For example if A and B interact with a mutual information value of 0.20, the edge connecting them will be longer than the edge connecting A and C that show a mutual information of 0.1.
Any suggestion about this?
Thank you in advance