Type: Package
Package: ceRNAnetsim
Title: Regulation Simulator of Interaction between miRNA and Competing
        RNAs (ceRNA)
Version: 1.22.0
Authors@R: 
    c(person(given = "Selcen",
             family = "Ari Yuka",
             role = c("aut", "cre"),
             email = "selcenarii@gmail.com",
             comment = c(ORCID = "0000-0002-0028-2453")),
      person(given = "Alper",
             family = "Yilmaz",
             role = "aut",
             email = "alperyilmaz@gmail.com",
             comment = c(ORCID = "0000-0002-8827-4887")))
Description: This package simulates regulations of ceRNA (Competing
        Endogenous) expression levels after a expression level change
        in one or more miRNA/mRNAs. The methodolgy adopted by the
        package has potential to incorparate any ceRNA (circRNA,
        lincRNA, etc.) into miRNA:target interaction network.  The
        package basically distributes miRNA expression over available
        ceRNAs where each ceRNA attracks miRNAs proportional to its
        amount. But, the package can utilize multiple parameters that
        modify miRNA effect on its target (seed type, binding energy,
        binding location, etc.).  The functions handle the given
        dataset as graph object and the processes progress via edge and
        node variables.
License: GPL (>= 3.0)
URL: https://github.com/selcenari/ceRNAnetsim
BugReports: https://github.com/selcenari/ceRNAnetsim/issues
Depends: R (>= 4.0.0), dplyr, tidygraph
Imports: furrr, rlang, tibble, ggplot2, ggraph, igraph, purrr, tidyr,
        future, stats
Suggests: knitr, png, rmarkdown, testthat, covr
VignetteBuilder: knitr
biocViews: NetworkInference, SystemsBiology, Network, GraphAndNetwork,
        Transcriptomics
Encoding: UTF-8
LazyData: false
RoxygenNote: 7.1.2
Config/pak/sysreqs: libfontconfig1-dev libfreetype6-dev libglpk-dev
        libicu-dev libxml2-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 14:55:49 UTC
RemoteUrl: https://github.com/bioc/ceRNAnetsim
RemoteRef: RELEASE_3_22
RemoteSha: 19914d627deb8335ce4c64bf949a1200d2363e97
NeedsCompilation: no
Packaged: 2025-11-11 14:28:59 UTC; root
Author: Selcen Ari Yuka [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-0028-2453>),
  Alper Yilmaz [aut] (ORCID: <https://orcid.org/0000-0002-8827-4887>)
Maintainer: Selcen Ari Yuka <selcenarii@gmail.com>
Built: R 4.5.2; ; 2025-11-11 14:30:45 UTC; windows
