makemim {c3net}

Constructing mutual information matrix

Description

makemim takes the data set as input and computes mutual information values for each pair of variables (e.g. gene). - see details.

Usage

makemim( expdata )

Arguments

expdata

Data matrix where rows correspond to variables (e.g. genes) and columns to samples.

Details

A mutual information matrix is generated from a data set using an empirical Gaussian estimator.

Value

makemim returns a symmetric mutual information matrix using empirical Gaussian estimator.

References

G. A. Darbellay, I. Vajda, "Estimation of the information by an adaptive partitioning of the observation space", IEEE Trans. Inf. Theory vol.45 (1999)

G. Altay, F. Emmert-Streib, "Inferring the conservative causal core of gene regulatory networks", BMC Systems Biology, (2010) 4:132.

See Also

c3,c3net, copula, checknet

Examples

data(expdata)

expdata <- copula(expdata)

mim <- makemim(expdata)