Hi everyone. I´m on cytoscape with an undirected network and I want to plot centralities (degree/betweenness), but the values of Betweenness centrality and betweenness unDir are really divergent, and I don´t know which value should I use.
When calculating betweenness centrality and several other network metrics, it matters if the network is directed or not directed. Betweenness centrality of nodes can be calculated in Cytoscape in at least two different ways: by using the built-in NetworkAnalyzer (in the tools menu) or by using the CentiScaPe app. The reason why this matters is that betweenness comes down to counting how many (or which fraction of) paths go through a given node. For a directed network, the paths must follow the correct directions of the edges. For an undirected network, all edges are considered bidirectional and paths can thus go either way through an edge.

NetworkAnalyzer will prompt the user whether the network should be considered directed or not directed and calculate metrics accordingly, putting the betweenness centrality of each node in a column called *BetweennessCentrality*. In CentiScaPe the user also has to select, but the resulting columns have different names (*Betweenness Dir* and *Betweeness unDir* for directed and undirected networks, respectively).

If your network is undirected, you should always use the undirected version of the metrics. The directed version will be meaningless since it involves assigning arbitrary directions to undirected edges. In case you wonder, the edges will always be considered as pointing from the column you specified as *Source* to the one you specified as *Target* when importing the network.