Package: TReNA
Type: Package
Title: Fit transcriptional regulatory networks using gene expression,
        priors, machine learning
Version: 0.99.10
Date: 2017-04-24
Author: Seth Ament <seth.ament@systemsbiology.org>, Paul Shannon
        <pshannon@systemsbioloyg.org>, Matthew Richards
        <mrichard@systemsbiology.org>
Maintainer: Matthew Richards <mrichard@systemsbiology.org>
Imports: RSQLite, lassopv, randomForest, flare, vbsr, foreach,
        doParallel, RPostgreSQL, methods, DBI, GenomicRanges
Depends: R (>= 3.4.0), utils, glmnet (>= 2.0.3),
Suggests: RUnit, limma, plyr, knitr, BiocGenerics, rmarkdown
VignetteBuilder: knitr
Description: Methods for reconstructing transcriptional regulatory
        networks, especially in species for which genome-wide TF
        binding site information is available.
License: GPL-3
biocViews: Transcription, GeneRegulation, NetworkInference,
        FeatureExtraction, Regression, SystemsBiology, GeneExpression
Collate: 'Solver.R' 'BayesSpikeSolver.R' 'CandidateFilter.R'
        'EnsembleSolver.R' 'FootprintFilter.R' 'FootprintFinder.R'
        'LassoPVSolver.R' 'LassoSolver.R' 'NullFilter.R'
        'PearsonSolver.R' 'RandomForestSolver.R' 'RidgeSolver.R'
        'SpearmanSolver.R' 'SqrtLassoSolver.R' 'TReNA.R'
        'VarianceFilter.R' 'help.R' 'sharedFunctions.R'
RoxygenNote: 6.0.1
NeedsCompilation: no
Packaged: 2017-05-08 01:03:47 UTC; biocbuild
Built: R 3.4.0; ; 2017-05-08 06:13:05 UTC; windows
