Package: gatom
Title: Finding an Active Metabolic Module in Atom Transition Network
Version: 1.9.4
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, 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
git_url: https://git.bioconductor.org/packages/gatom
git_branch: devel
git_last_commit: fa3c8c8
git_last_commit_date: 2025-12-02
Repository: Bioconductor 3.23
Date/Publication: 2025-12-03
NeedsCompilation: no
Packaged: 2025-12-03 21:27:57 UTC; biocbuild
Author: Anastasiia Gainullina [aut],
  Mariia Emelianova [aut],
  Alexey Sergushichev [aut, cre]
Maintainer: Alexey Sergushichev <alsergbox@gmail.com>
Built: R 4.6.0; ; 2025-12-04 09:14:13 UTC; unix
