makemim function

Constructing mutual information matrix

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

makemim( expdata )

Arguments

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

Returns

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

Details

A mutual information matrix is generated from a data set using an 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)