Package: gINTomics
Title: Multi-Omics data integration
Version: 1.9.0
Authors@R: c(person("Angelo", "Velle", role = c("cre", "aut"),
                    email = "angelo.velle@unipd.it",
                    comment = c(ORCID = "0000-0002-4010-6390")),
             person("Francesco", "Patane'", role = "aut",
                     email = "francesco.patane@unipd.it", 
                     comment = c(ORCID = "0009-0001-8619-447X")),
             person("Chiara", "Romualdi", role = "aut", 
                    email = "chiara.romualdi@unipd.it",
                    comment = c(ORCID = "0000-0003-4792-9047")))
Description: gINTomics is an R package for Multi-Omics data integration
        and visualization. gINTomics is designed to detect the
        association between the expression of a target and of its
        regulators, taking into account also their genomics
        modifications such as Copy Number Variations (CNV) and
        methylation. What is more, gINTomics allows integration results
        visualization via a Shiny-based interactive app.
License: AGPL-3
biocViews: GeneExpression, RNASeq, Microarray, Visualization,
        CopyNumberVariation, GeneTarget
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
Imports: BiocParallel, biomaRt, OmnipathR, edgeR, ggplot2, ggridges,
        gtools, MultiAssayExperiment, plyr, stringi, stringr,
        SummarizedExperiment, methods, stats, reshape2, randomForest,
        limma, org.Hs.eg.db, org.Mm.eg.db, BiocGenerics,
        GenomicFeatures, ReactomePA, clusterProfiler, dplyr,
        AnnotationDbi, TxDb.Hsapiens.UCSC.hg38.knownGene,
        TxDb.Mmusculus.UCSC.mm10.knownGene, shiny, GenomicRanges,
        ggtree, shinydashboard, plotly, DT, MASS,
        InteractiveComplexHeatmap, ComplexHeatmap, visNetwork,
        shiny.gosling, ggvenn, RColorBrewer, utils, grDevices, callr,
        circlize, MethylMix, shinyjs
Depends: R (>= 4.4.0)
LazyData: false
Suggests: BiocStyle, knitr, rmarkdown, testthat (>= 3.0.0)
Config/testthat/edition: 3
VignetteBuilder: knitr
BugReports: https://github.com/angelovelle96/gINTomics/issues
URL: https://github.com/angelovelle96/gINTomics
Config/pak/sysreqs: libcairo2-dev cmake libfontconfig1-dev
        libfreetype6-dev libfribidi-dev libglpk-dev make
        libharfbuzz-dev libbz2-dev libicu-dev liblzma-dev libpng-dev
        libuv1-dev libxml2-dev libssl-dev perl libx11-dev xz-utils
        zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 13:03:03 UTC
RemoteUrl: https://github.com/bioc/gINTomics
RemoteRef: HEAD
RemoteSha: 3ab36b806acb4d23c76bb4c521d78728fa4235b2
NeedsCompilation: no
Packaged: 2026-07-04 07:52:36 UTC; root
Author: Angelo Velle [cre, aut] (ORCID:
    <https://orcid.org/0000-0002-4010-6390>),
  Francesco Patane' [aut] (ORCID:
    <https://orcid.org/0009-0001-8619-447X>),
  Chiara Romualdi [aut] (ORCID: <https://orcid.org/0000-0003-4792-9047>)
Maintainer: Angelo Velle <angelo.velle@unipd.it>