# Analyzer Analyzer computes a comprehensive set of topological metrics for undirected and directed networks, including: - Number of nodes, edges and connected components. - Network diameter, radius and clustering coefficient, as well as the characteristic path length. - Charts for topological coefficients, betweenness, and closeness. - Distributions of degrees, neighborhood connectiveness, average clustering coefficients, shortest path lengths, number of shared neighbors and stress centrality. ## Network Analysis ### Analyze Network To run Analyzer, select **Tools → Analyze Network**.  Analyzer will run different statistics depending on whether the network is directed or undirected, with the default being undirected. A **Set Parameters** dialog will open where you can specify if the network should be analyzed as a directed graph. When results are ready, they will appear in the **Results Panel**.  The results have multiple tabs, accessible via the buttons on the bottom of the panel. Details on the network metrics can be found **[here](http://med.bioinf.mpi-inf.mpg.de/netanalyzer/help/2.7/index.html#complex)**. - **Simple Metrics** - **Node Degree Distribution** - **Clustering Coefficient** - **Topological Coefficient** - **Average Shortest Path Length** - **Neighborhood Connectivity** - **Betweenness Centrality** - **Closeness Centrality** - **Stress Centrality** ### Analyze Subset of Nodes Prior versions of this tool offered the option of analyzing all nodes or only a selected subset. This is no longer supported directly in the program. Instead, if you want to analyze a subnetwork, you can use the command **File → New Network → From Selected Nodes, All Edges** in the **Command Panel** to create the desired subnetwork. ### Plot Metrics Once the Analyzer is run, several additional columns are added to the **Node Table** (and an EdgeBetweenness column is added to the **Edge Table**). To plot any of these new columns, right-click on the column header and select **Plot Histogram...** for a single parameter distribution, or **Plot Scatter...** for a bivariate plot of the data. Within either of these charts it is possible to select a section of the data, and select the nodes (edges) in the main graph window corresponding to the region selected on the chart. For additional information about **NetworkAnalyzer** see **Yassen Assenov, Nadezhda Doncheva, Thomas Lengauer, and Mario Albrecht**, DOI: [10.1038/nprot.2012.004](https://doi.org/10.1038/nprot.2012.004).