Package: RTN Type: Package Title: RTN: Reconstruction of Transcriptional regulatory Networks and analysis of regulons Version: 2.37.0 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 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 Config/pak/sysreqs: cmake libglpk-dev make libicu-dev libuv1-dev libxml2-dev libssl-dev zlib1g-dev Repository: https://bioc.r-universe.dev Date/Publication: 2026-04-28 12:38:01 UTC RemoteUrl: https://github.com/bioc/RTN RemoteRef: HEAD RemoteSha: 8d8eb9db7576c7c9a802f4faed7ec0745dcac871 NeedsCompilation: no Packaged: 2026-06-19 06:47:07 UTC; root