Package: Protein2Tissue
Title: An R package for tissue expression analysis and gene set
        enrichment
Version: 0.99.5
Authors@R: c(
    person(given   = "Chaoran",
           family  = "Yang",
           email   = "chr.mt.yang@outlook.com",
           role    = c("aut", "cre"),
           comment = c(ORCID = "0000-0001-6639-8136")),
    person(given   = "Yao",
           family  = "Chen",
           email   = "emmachentar@live.com",
           role    = "aut",
           comment = c(ORCID = "0000-0001-8172-3996")))
Description: Protein2Tissue provides a comprehensive framework for
        analysing tissue-specific gene and protein expression patterns.
        The package allows users to map genes or proteins to their
        predominant tissue types, perform tissue-based enrichment
        analysis on gene sets, and explore expression profiles across a
        wide range of human tissues. Reference expression data is
        derived from publicly available databases the Human Protein
        Atlas (https://www.proteinatlas.org).
biocViews: Proteomics, Transcriptomics, GeneSetEnrichment, Network
License: file LICENSE
Encoding: UTF-8
LazyData: false
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
Depends: R (>= 4.4.0)
Imports: dplyr, tidyr, igraph, ggraph, ggplot2, ggpubr,
        clusterProfiler, AnnotationDbi, org.Hs.eg.db, methods, Exact
Suggests: testthat (>= 3.0.0), knitr, rmarkdown, BiocStyle
VignetteBuilder: knitr
URL: https://github.com/chryang/Protein2Tissue
BugReports: https://github.com/chryang/Protein2Tissue/issues
Collate: 'AllClasses.R' 'AllGenerics.R' 'AllMethods.R' 'data.R'
        'geneClassification.R' 'goEnriched.R' 'heatmapEnrich.R'
        'internal_functions.R' 'networkPlot.R' 'plotProteinType.R'
        'testByTissue.R' 'testPlot.R' 'tissueAnalysis.R'
        'tissueAnalysis2.R' 'writeOutput.R'
Config/pak/sysreqs: libcairo2-dev cmake libfontconfig1-dev
        libfreetype6-dev libglpk-dev make libicu-dev libpng-dev
        libuv1-dev libxml2-dev libssl-dev zlib1g-dev
Repository: https://biocstaging.r-universe.dev
Date/Publication: 2026-10-06 16:25:24 UTC
RemoteUrl: https://github.com/BiocStaging/Protein2Tissue
RemoteRef: HEAD
RemoteSha: 447083eb2537be05842e2732a2b9b4335d83d99b
NeedsCompilation: no
Packaged: 2026-10-07 08:28:41 UTC; root
Author: Chaoran Yang [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-6639-8136>),
  Yao Chen [aut] (ORCID: <https://orcid.org/0000-0001-8172-3996>)
Maintainer: Chaoran Yang <chr.mt.yang@outlook.com>