Description Usage Arguments Details Value References Examples
Mutual information matrix estimation wrapper function for various mutual information estimators. Depends on infotheo package for mutual information estimators on discrete variables.
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dataset |
Data gene expression matrix where rows denote genes (features) and columns samples. |
estimator |
estimators for continuous variables "pearson" (default), "spearman", "kendall", "spearman" estimators for discrete variables (infotheo package) "emp", "mm","sg","shrink" |
disc |
only required for discrete estimators (see infotheo package) "equalwidth" (default), "globalequalwidth" , "equalfreq" |
bins |
number of bins for the descretize function (infotheo), default sqrt(ncol(dataset)) |
A mutual information matrix is estimated from a gene expression data set
mimwrap
returns a symmetric mutual information matrix for
various mutual information estimators.
Patrick E Meyer, Frederic Lafitte and Gianluca Bontempi, minet: A R/Bioconductor Package for Inferring Large Transcriptional Networks Using Mutual Information, BMC Bioinformatics 2008, 9:461
Carsten O. Daub, Ralf Steuer, Joachim Selbig, and Sebastian Kloska, Estimating mutual information using B-spline functions - an improved similarity measure for analysing gene expression data, BMC Bioinformatics. 2004; 5: 118
de Matos Simoes R, Emmert-Streib F., Bagging statistical network inference from large-scale gene expression data., PLoS One. 2012;7(3):e33624. Epub 2012 Mar 30.
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