Package: RTN
Type: Package
Title: RTN: Reconstruction of Transcriptional regulatory Networks and
        analysis of regulons
Version: 2.32.0
Author: Clarice Groeneveld [ctb], Gordon Robertson [ctb], Xin Wang [aut], Michael Fletcher [aut], Florian Markowetz [aut], Kerstin Meyer [aut], and Mauro Castro [aut]
Maintainer: Mauro Castro <mauro.a.castro@gmail.com>
Depends: R (>= 3.6.3), methods,
Imports: RedeR, minet, viper, mixtools, snow, stats, limma, data.table,
        IRanges, igraph, S4Vectors, SummarizedExperiment, car, pwr,
        pheatmap, grDevices, graphics, utils
Suggests: RUnit, BiocGenerics, BiocStyle, knitr, rmarkdown
Description: A transcriptional regulatory network (TRN) consists of a collection of transcription factors (TFs) and the regulated target genes. TFs are regulators that recognize specific DNA sequences and guide the expression of the genome, either activating or repressing the expression the target genes. The set of genes controlled by the same TF forms a regulon. This package provides classes and methods for the reconstruction of TRNs and analysis of regulons.
License: Artistic-2.0
biocViews: Transcription, Network, NetworkInference, NetworkEnrichment,
        GeneRegulation, GeneExpression, GraphAndNetwork,
        GeneSetEnrichment, GeneticVariability
VignetteBuilder: knitr
URL: http://dx.doi.org/10.1038/ncomms3464
Collate: ClassUnions.R AllChecks.R AllClasses.R AllGenerics.R
        AllSupplementsTNA.R AllSupplementsTNI.R AllSupplementsAVS.R
        AllPlotsTNA.R AllPlotsAVS.R AllPlotsTNI.R TNA-methods.R
        TNI-methods.R AVS-methods.R TNI-pruning.R TNI-annotation.R
        TNI-subgroups.R
LazyLoad: yes
git_url: https://git.bioconductor.org/packages/RTN
git_branch: RELEASE_3_21
git_last_commit: 395d859
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.21
Date/Publication: 2025-04-15
NeedsCompilation: no
Packaged: 2025-04-16 03:26:15 UTC; biocbuild
Built: R 4.5.0; ; 2025-04-16 15:23:52 UTC; windows
