What’s the answer? (network visualization)

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Today’s featured issue: More visualization! I continue to want to explore more options to visualize data in new or handy ways. This week’s question offers me some new resources to explore. Check it out.

Question: network visualization tools

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.


Follow the links in the answers to learn about a couple of tools that might solve this. And also add your own suggestions if you know something that might be good to explore.

One thought on “What’s the answer? (network visualization)

  1. Pingback: What’s the answer? (network visualization) | The OpenHelix Blog | Virology and Bioinformatics from Virology.ca | Scoop.it

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