Tetrad contains an wonderful suite of causal search algorithms, but it is not so great for visualization. Cytoscape is free and a great tool for visualizing networks. If you have a medium to large graph (say, more than 50 nodes), you may find it easier to interpret the structure in Cytoscape. Here’s how:
- Save your Tetrad graph as a text file
- The text file will look something like: Delete everything above the first edge, so your file begins with a line like "1. X1 --- X2".
- Open Cytoscape and click on the "Import network from file" button.
- After choosing your file, click on "Advanced options". Pick the following options:
- Set the delimiter to SPACE
- Uncheck "Variable names in first row"
- Choose the second column to be the Source
- Choose the third column to be the Interaction Type
- Choose the fourth column to be the Target
- Click ok
- Set the edge theme to reflect the edge endpoints in Tetrad.