Package: gatom
Title: Finding an Active Metabolic Module in Atom Transition Network
Version: 1.11.4
Authors@R: 
    c(
    person("Anastasiia", "Gainullina", role = c("aut")),
    person("Mariia", "Emelianova", role = c("aut")),
    person("Alexey", "Sergushichev", email = "alsergbox@gmail.com", role = c("aut", "cre")))
Description: This package implements a metabolic network analysis
        pipeline to identify an active metabolic module based on high
        throughput data. The pipeline takes as input transcriptional
        and/or metabolic data and finds a metabolic subnetwork (module)
        most regulated between the two conditions of interest. The
        package further provides functions for module post-processing,
        annotation and visualization.
biocViews: GeneExpression, DifferentialExpression, Pathways, Network
Depends: R (>= 4.3.0)
Imports: data.table, igraph, BioNet, plyr, methods, XML, sna,
        intergraph, network, ggnetwork, scales, grid, ggplot2, mwcsr,
        htmlwidgets, htmltools, shinyCyJS (>= 1.0.0)
Suggests: testthat, knitr, rmarkdown, KEGGREST (>= 1.53.2),
        AnnotationDbi, org.Mm.eg.db, reactome.db, fgsea, readr,
        BiocStyle, R.utils
License: MIT + file LICENCE
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.3
VignetteBuilder: knitr
URL: https://github.com/ctlab/gatom/
BugReports: https://github.com/ctlab/gatom/issues
Config/pak/sysreqs: cmake libglpk-dev make default-jdk libpng-dev
        libuv1-dev libxml2-dev libssl-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-06-18 23:23:36 UTC
RemoteUrl: https://github.com/bioc/gatom
RemoteRef: HEAD
RemoteSha: 4bd914ef0a6f5fe2925224602756290ca258027e
NeedsCompilation: no
Packaged: 2026-06-19 09:13:48 UTC; root
Author: Anastasiia Gainullina [aut],
  Mariia Emelianova [aut],
  Alexey Sergushichev [aut, cre]
Maintainer: Alexey Sergushichev <alsergbox@gmail.com>
Built: R 4.6.0; ; 2026-06-19 09:16:43 UTC; windows
