Software

Our workgroup produces software written in several programming languages.  There is a set of legacy programs created in Fortran and in C++.  Newer versions of the software are assembled in more productive environments such as Python or MATLAB.  Some of this software is available upon request.  However the workgroup also publishes a software package detailed below.

INTERACT Toolbox

The INTERACT Toolbox is a MATLAB toolbox for analysis of interactions in time series with focus on phase dynamics.  Using the toolkit common tasks can be performed with a call of a function.  Specifically, the toolkit allows the user to:

• extract phase from time series,
• compute various dependence indices (mean phase coherence, mutual information, conditional probability),
• compute conditional mutual information (using the equiquantal binning method),
• construct surrogate time series (using phases or using amplitude time series),
• integrate various dynamical models and perform model testing experiments.

With the above toolbox the full range of weak interactions between a pair of systems can be analyzed.  The toolbox is scheduled tp be extended with functions for multidimensional time series analysis in the near future.

NDW-Graph Toolbox

The NDW-Graph Toolbox is C++ toolbox with interface to Matlab for analysis of large networks of several types (unweighted, weighted, ...). Among others functionalities one can use this toolbox for:

• compute basic graph characteristics like degree, density, strength, clustering coefficient, etc.,
• compute distance matrix and several other derived characteristics like characteristic path length, efficiency, transitivity, etc.,
• determine number of components and their actual structure,
• compute several centrality indices like closeness, betweenness centrality, etc.,
• compute some other characteristics like assortative coefficient, average nearest neighbors,
• compute small-wolrd coefficients.

and some parts can be missing.