Package: magrene
Title: Motif Analysis In Gene Regulatory Networks
Version: 1.11.0
Date: 2022-01-21
Authors@R: 
    c(
    person(given = "Fabrício",
           family = "Almeida-Silva",
           role = c("aut", "cre"),
           email = "fabricio_almeidasilva@hotmail.com",
           comment = c(ORCID = "0000-0002-5314-2964")),
    person(given = "Yves",
           family = "Van de Peer",
           role = "aut",
           comment = c(ORCID = "0000-0003-4327-3730"))
    )
Description: magrene allows the identification and analysis of graph motifs 
    in (duplicated) gene regulatory networks (GRNs), including lambda, 
    V, PPI V, delta, and  bifan motifs. GRNs can be tested for motif 
    enrichment by comparing motif frequencies to a null distribution 
    generated from degree-preserving simulated GRNs. Motif frequencies 
    can be analyzed in the context of gene duplications to explore the 
    impact of small-scale and whole-genome duplications on gene 
    regulatory networks. Finally, users can calculate interaction similarity
    for gene pairs based on the Sorensen-Dice similarity index.
License: GPL-3
URL: https://github.com/almeidasilvaf/magrene
BugReports: https://support.bioconductor.org/t/magrene
biocViews: Software, MotifDiscovery, NetworkEnrichment, SystemsBiology,
        GraphAndNetwork
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.0
Imports: utils, stats, BiocParallel
Suggests: BiocStyle, covr, knitr, rmarkdown, ggplot2, sessioninfo,
        testthat (>= 3.0.0)
Config/testthat/edition: 3
VignetteBuilder: knitr
Depends: R (>= 4.2.0)
LazyData: false
git_url: https://git.bioconductor.org/packages/magrene
git_branch: devel
git_last_commit: c20bac1
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.22
Date/Publication: 2025-06-04
NeedsCompilation: no
Packaged: 2025-06-05 00:02:50 UTC; biocbuild
Author: Fabrício Almeida-Silva [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-5314-2964>),
  Yves Van de Peer [aut] (ORCID: <https://orcid.org/0000-0003-4327-3730>)
Maintainer: Fabrício Almeida-Silva <fabricio_almeidasilva@hotmail.com>
Built: R 4.5.0; ; 2025-06-05 13:19:27 UTC; windows
