Package: birte
Version: 1.10.0
Date: 2015-06-16
Title: Bayesian Inference of Regulatory Influence on Expression (biRte)
Author: Holger Froehlich, contributions by Benedikt Zacher
Maintainer: Holger Froehlich <frohlich@bit.uni-bonn.de>
Depends: R(>= 3.0.0), RcppArmadillo (>= 0.3.6.1), Rcpp
Imports: MASS, limma(>= 3.22.0), glmnet, Biobase, nem, graphics, stats,
        utils
Reference: H. Froehlich, biRte: Bayesian Inference of Context Specific
        Regulator Activities and Transcriptional Networks,
        Bioinformatics, 2015, in press.
Suggests: knitr
Enhances: Rgraphviz
LinkingTo: RcppArmadillo, Rcpp
NeedsCompilation: yes
SystemRequirements: BLAS, LAPACK
Materials: Please enable BLAS and LAPACK for armadillo library (see
        http://arma.sourceforge.net/faq.html). The file config.hpp can
        be found under library/RcppArmadillo/include/armadillo_bits.
Description: Expression levels of mRNA molecules are regulated by
        different processes, comprising inhibition or activation by
        transcription factors and post-transcriptional degradation by
        microRNAs. biRte uses regulatory networks of TFs, miRNAs and
        possibly other factors, together with mRNA, miRNA and other
        available expression data to predict the relative influence of
        a regulator on the expression of its target genes. Inference is
        done in a Bayesian modeling framework using
        Markov-Chain-Monte-Carlo. A special feature is the possibility
        for follow-up network reverse engineering between active
        regulators.
License: GPL (>= 2)
biocViews: Microarray, Sequencing, GeneExpression, Transcription,
        Network, Bayesian, Regression, NetworkInference
LazyLoad: yes
VignetteBuilder: knitr
Packaged: 2016-10-18 00:10:36 UTC; biocbuild
Built: R 3.3.1; i386-w64-mingw32; 2016-10-18 01:21:56 UTC; windows
Archs: i386, x64
