rjdkmr / mutual_information

This program calculates mutual information and generalized correlation

mutual_information

This program calculates mutual information by using the method developed in the following article:
Alexander Kraskov, Harald Stögbauer, and Peter Grassberger (2004)
Estimating mutual information
Physical Review E 69, 066138.
URL: http://link.aps.org/doi/10.1103/PhysRevE.69.066138

This program also calculates generalized correlation by using the method discussed in the following article:
Oliver F. Lange andHelmut Grubmüller (2005)
Generalized correlation for biomolecular dynamics
Proteins: Structure, Function, and Bioinformatics 62:1053-1061.
URL: http://onlinelibrary.wiley.com/doi/10.1002/prot.20784/full

WARNING: This program is not completely tested for the calculation accuracy. Use it at your own RISK.

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###Download

git clone https://github.com/rjdkmr/mutual_information

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###Installation

cd mutual_information
mkdir build
cd build
cmake .. -DCMAKE_INSTALL_PREFIX=/opt/mutual_information
make
make install

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###Usage

 mi [k] [nc] [INPUT FILE] [OUTPUT FILE MI] [OUTPUT FILE R]

Where "k" is number of nearest neighbor points. "nc" is no. of columns in input file. e.g. if total no. of column is 5 and nc is 3 then 3x2 matrix will be computed. If nc=0, 5x5 matrix will be computed.

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