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README.md
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README.md
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Copyright (C) 2012-2014 [Joseph T. Lizier](http://lizier.me/joseph/); 2014-2015 [Joseph T. Lizier](http://lizier.me/joseph/) and Ipek Özdemir
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*JIDT* provides a stand-alone, open-source code Java implementation (also usable in [Matlab, Octave](wiki/UseInOctaveMatlab), [Python](UseInPython), [R](UseInR), [Julia](UseInJulia) and [Clojure](UseInClojure)) of information-theoretic measures of distributed computation in complex systems: i.e. information storage, transfer and modification.
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*JIDT* provides a stand-alone, open-source code Java implementation (also usable in [Matlab, Octave](../../wiki/UseInOctaveMatlab), [Python](../../wiki/UseInPython), [R](../../wiki/UseInR), [Julia](../../wiki/UseInJulia) and [Clojure](../../wiki/UseInClojure)) of information-theoretic measures of distributed computation in complex systems: i.e. information storage, transfer and modification.
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JIDT includes implementations:
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* principally for the measures **transfer entropy**, **mutual information**, and their conditional variants, as well as **active information storage**, entropy, etc;
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@ -14,15 +14,15 @@ JIDT is distributed under the [GNU GPL v3 license](http://www.gnu.org/licenses/g
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# Getting started
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1. [Download](Downloads) and [Installation](Installation) is very easy!
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1. [Download](../../wiki/Downloads) and [Installation](../../wiki/Installation) is very easy!
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1. _Quick start_: download the latest [v1.3 full distribution](http://lizier.me/joseph/software/jidt/download.php?file=infodynamics-dist-1.3.zip) (suitable for all platforms) and see the readme.txt file therein.
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1. [Documentation](Documentation) including: the paper describing JIDT at [arXiv:1408.3270](http://arxiv.org/abs/1408.3270) (distributed with the toolkit), a [Tutorial](Tutorial), and [Javadocs (v1.3 here)](http://lizier.me/joseph/software/jidt/javadocs/v1.3/);
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1. [Demos](Demos) are included with the full distribution, including a [GUI app](AutoAnalyser) for automatic analysis and code generation, [simple java demos](SimpleJavaExamples) and [cellular automata (CA) demos](CellularAutomataDemos).
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1. These Java tools can easily be used in [Matlab/Octave](OctaveMatlabExamples), [Python](PythonExamples), [R](R_Examples), [Julia](JuliaExamples) and [Clojure](Clojure_Examples)! (click on each language here for examples)
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1. [Documentation](../../wiki/Documentation) including: the paper describing JIDT at [arXiv:1408.3270](http://arxiv.org/abs/1408.3270) (distributed with the toolkit), a [Tutorial](../../wiki/Tutorial), and [Javadocs (v1.3 here)](http://lizier.me/joseph/software/jidt/javadocs/v1.3/);
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1. [Demos](../../wiki/Demos) are included with the full distribution, including a [GUI app](../../wiki/AutoAnalyser) for automatic analysis and code generation, [simple java demos](../../wiki/SimpleJavaExamples) and [cellular automata (CA) demos](../../wiki/CellularAutomataDemos).
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1. These Java tools can easily be used in [Matlab/Octave](../../wiki/OctaveMatlabExamples), [Python](../../wiki/PythonExamples), [R](../../wiki/R_Examples), [Julia](../../wiki/JuliaExamples) and [Clojure](../../wiki/Clojure_Examples)! (click on each language here for examples)
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For further information or announcements:
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* Join our discussion group: http://groups.google.com/d/forum/jidt-discuss
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* See also the [FAQs](FAQs)
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* See also the [FAQs](../../wiki/FAQs)
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* Follow [@infodynamicstkt](http://twitter.com/infodynamicstkt) on twitter
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# Citation
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@ -33,7 +33,7 @@ Joseph T. Lizier, "JIDT: An information-theoretic toolkit for studying the dynam
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And please [let me know](mailto:joseph.lizier_AT_gmail.com) about any publications resulting from its use!
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See other PublicationsUsingThisToolkit.
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See other [PublicationsUsingThisToolkit](../../wiki/PublicationsUsingThisToolkit).
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# News
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@ -85,9 +85,9 @@ _20/4/2014_ - New jar and full distribution files available for v0.2.0; Moved do
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_11/9/2013_ - New jar and full distribution files available for v0.1.4; added scripts to generate CA figures for 2013 book chapters; added general Java demo code; added Python demo code; made Octave/Matlab demos and CA demos properly compatible for Matlab; added extra Octave/Matlab general demos; added more unit tests for MI and conditional MI calculators, including against results from Wibral's TRENTOOL; bug fixes.
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_11/9/2013_ - New CA demo scripts for several review book chapters we're preparing in 2013 have been uploaded - see [CellularAutomataDemos](CellularAutomataDemos).
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_11/9/2013_ - New CA demo scripts for several review book chapters we're preparing in 2013 have been uploaded - see [CellularAutomataDemos](../../wiki/CellularAutomataDemos).
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_4/6/2013_ - Added instructions on how to [use in python](UseInPython) and several [PythonExamples](PythonExamples).
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_4/6/2013_ - Added instructions on how to [use in python](../../wiki/UseInPython) and several [PythonExamples](../../wiki/PythonExamples).
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_13/01/2013_ - New jar and full distribution files available for v0.1.3; existing Octave/Matlab demo code made compatible with Matlab; several bug fixes, including using max norm by default in Kraskov calculator (instead of requiring this to be set explicitly); more unit tests (including against results from Kraskov's own MI implementation)
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