Package: CARNIVAL
Title: A CAusal Reasoning tool for Network Identification (from gene
        expression data) using Integer VALue programming
Version: 2.23.0
Authors@R: c(
    person(given = "Enio",
           family = "Gjerga",
           role = c("aut"),
           email = "enio.gjerga@gmail.com",
           comment = c(ORCID = "0000-0002-3060-5786")),
    person(given = "Panuwat",
           family = "Trairatphisan",
           role = "aut"),
    person(given = "Anika",
           family = "Liu",
           role = "ctb"),
    person(given = "Alberto",
           family = "Valdeolivas",
           role = "ctb"),
    person(given = "Nikolas",
           family = "Peschke",
           role = "ctb"),
    person(given = "Aurelien",
           family = "Dugourd",
           role = "ctb"),
    person(given = "Attila",
           family = "Gabor",
           role = "cre",
           email = "attila.gabor@uni-heidelberg.de"),
    person(given = "Olga",
           family = "Ivanova",
           role = "aut",
           email = "olga.ivanova@bioquant.uni-heidelberg.de")
           )
Description: An upgraded causal reasoning tool from Melas et al in R
        with updated assignments of TFs' weights from PROGENy scores.
        Optimization parameters can be freely adjusted and multiple
        solutions can be obtained and aggregated.
URL: https://github.com/saezlab/CARNIVAL
BugReports: https://github.com/saezlab/CARNIVAL/issues
Depends: R (>= 4.0)
Imports: readr, stringr, lpSolve, igraph, dplyr, tibble, tidyr, rjson,
        rmarkdown
biocViews: Transcriptomics, GeneExpression, Network
License: GPL-3
Encoding: UTF-8
Suggests: RefManageR, BiocStyle, covr, knitr, testthat (>= 3.0.0),
        sessioninfo
VignetteBuilder: knitr
RoxygenNote: 7.1.2
Config/testthat/edition: 3
Config/pak/sysreqs: cmake libglpk-dev make libicu-dev libuv1-dev
        libxml2-dev libx11-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:52:37 UTC
RemoteUrl: https://github.com/bioc/CARNIVAL
RemoteRef: HEAD
RemoteSha: 19f1f6672181d95ae005041b2235b29575049694
NeedsCompilation: no
Packaged: 2026-06-11 07:05:39 UTC; root
Author: Enio Gjerga [aut] (ORCID: <https://orcid.org/0000-0002-3060-5786>),
  Panuwat Trairatphisan [aut],
  Anika Liu [ctb],
  Alberto Valdeolivas [ctb],
  Nikolas Peschke [ctb],
  Aurelien Dugourd [ctb],
  Attila Gabor [cre],
  Olga Ivanova [aut]
Maintainer: Attila Gabor <attila.gabor@uni-heidelberg.de>