DESCRIPTION

Package: gatom
Title: Finding an Active Metabolic Module in Atom Transition Network
Version: 1.3.0
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,
    GGally,
    grid,
    ggplot2,
    mwcsr,
    pryr,
    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: 7.2.3
VignetteBuilder: knitr
URL: https://github.com/ctlab/gatom/
BugReports: https://github.com/ctlab/gatom/issues