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Joseph Lizier -- Software

Home > Software

Cluster framework
Information dynamics
Related software

I have developed and released the following software:

Simple cluster jobs framework

A simple framework for running processes on a cluster using qsub commands. Read more and download from here.

Java information dynamics toolkit

I have not yet publicly released this code - please email me to discuss any collaborations if you would like to use it (including Java transfer entropy code)..

Related software from others:

TRENTOOL - the Transfer Entropy Toolbox for the Fieldtrip data format, from Michael Lindner, Raul Vicente and Michael Wibral. TRENTOOL provides an implementation of the transfer entropy (harnessing the Kraskov variable kernel width algorithm to handle small data sets) which is guided towards effective network inference in neural data sets.

Brain Connectivity Toolbox - a set of complex network measures implemented in Matlab. From Olaf Sporns, Mika Rubinov and others.

RBNLab (see also here) - a toolkit for random Boolean networks (RBNs) written in Java, developed by Carlos Gershenon.