The package implements a two-stage algorithm to screen co-expressed
gene pairs with controlled False Discovery Rate (FDR) and Minimum Acceptable Strength
(MAS). The packages also constructs relevance networks and clusters co-expressed
genes (both similarly co-expressed and transitively co-expressed). In addtion, it
includes new correlation estimators and non-parametric statistical inference procedure
for replicated gene microarray data.
R (>= 1.9.0), e1071, GeneTS, graph, RBGL

Rainer Opgen-Rhein, Juliane Schaefer, and
Korbinian Strimmer.
GeneNet is a package for analyzing gene expression
(time series) data with focus on the inference of gene networks.
In particular, GeneNet implements the methods of Schaefer and
Strimmer (2005a,b,c) and Opgen-Rhein and Strimmer (2006)
for learning large-scale gene association networks.
For plotting the gene networks
GeneNet uses the "graph" and "Rgraphviz" packages, available from
http://www.bioconductor.org.

GeneNet is a package for analyzing gene expression
(time series) data with focus on the inference of gene networks.
In particular, GeneNet implements the methods of Schaefer and
Strimmer (2005a,b,c) and Opgen-Rhein and Strimmer (2006)
for learning large-scale gene association networks.
For plotting the gene networks the package contains functions
for producing "graphviz" dot files.

GeneNet is a package for analyzing gene expression
(time series) data with focus on the inference of gene networks.
In particular, GeneNet implements the methods of Schaefer and
Strimmer (2005a,b,c) and Opgen-Rhein and Strimmer (2006, 2007)
for learning large-scale gene association networks (including
assignment of putative directions).

Juliane Schaefer, Rainer Opgen-Rhein, and
Korbinian Strimmer.

Analyzes gene expression
(time series) data with focus on the inference of gene networks.
In particular, GeneNet implements the methods of Schaefer and
Strimmer (2005a,b,c) and Opgen-Rhein and Strimmer (2006, 2007)
for learning large-scale gene association networks (including
assignment of putative directions).