Package: XYomics
Title: Analysis of Sex Differences in Omics Data for Complex Diseases
Version: 0.1.4
Authors@R: 
  c(
    person("Enrico", "Glaab", email = "enrico.glaab@uni.lu", role = c("aut", "cre")),
    person("Sophie", "Le Bars", email = "sophie.lebars@uni.lu", role = "aut"),
    person("Mohamed", "Soudy", email = "mohamed.soudy@uni.lu", role = "aut"),
    person("Murodzhon", "Akhmedov", role = c("cph"))
  )
Maintainer: Enrico Glaab <enrico.glaab@uni.lu>
Description: Tools to analyze sex differences in omics data for complex
        diseases. It includes functions for differential expression
        analysis using the 'limma' method <doi:10.1093/nar/gkv007>,
        interaction testing between sex and disease, pathway enrichment
        with 'clusterProfiler' <doi:10.1089/omi.2011.0118>, and gene
        regulatory network (GRN) construction and analysis using
        'igraph'. The package enables a reproducible workflow from raw
        data processing to biological interpretation.
Depends: R (>= 3.6)
Imports: limma, igraph, edgeR, SeuratObject, Seurat, data.table,
        ggplot2, tidyr, grid, ggraph, dplyr, AnnotationDbi, ggrepel,
        Rcpp, cowplot, patchwork, methods, DESeq2, S4Vectors,
        clusterProfiler
License: MIT + file LICENSE
Encoding: UTF-8
RoxygenNote: 7.3.3
Suggests: R.utils, DT, gridExtra, knitr, htmltools, kableExtra,
        rmarkdown, stringr, ReactomePA, org.Hs.eg.db
LinkingTo: Rcpp
VignetteBuilder: knitr, rmarkdown
NeedsCompilation: yes
Packaged: 2026-06-10 10:51:48 UTC; root
Author: Enrico Glaab [aut, cre], Sophie Le Bars [aut], Mohamed Soudy
        [aut], Murodzhon Akhmedov [cph]
Config/pak/sysreqs: libcairo2-dev cmake libfontconfig1-dev
        libfreetype6-dev libglpk-dev make libicu-dev libpng-dev
        libuv1-dev libxml2-dev libssl-dev python3 zlib1g-dev
Repository: https://eglaab.r-universe.dev
Date/Publication: 2026-05-11 18:11:53 UTC
RemoteUrl: https://github.com/cran/XYomics
RemoteRef: HEAD
RemoteSha: e776493453521403af812ea8f194d56205b34f7f