Package: PhosR
Type: Package
Title: A set of methods and tools for comprehensive analysis of
        phosphoproteomics data
Version: 1.18.1
Authors@R: c(
    person("Pengyi", "Yang", email = "pengyi.yang@sydney.edu.au", role = c("aut")),
    person("Taiyun", "Kim", email = "taiyun.kim91@gmail.com", role = c("aut", "cre")),
    person("Hani Jieun", "Kim", email = "jieun.kim@sydney.edu.au", role = c("aut")))
Description: PhosR is a package for the comprenhensive analysis of phosphoproteomic data.
    There are two major components to PhosR: processing and downstream analysis.
    PhosR consists of various processing tools for phosphoproteomics data
    including filtering, imputation, normalisation, and functional analysis
    for inferring active kinases and signalling pathways.
License: GPL-3 + file LICENSE
Depends: R (>= 4.2.0)
Imports: ruv, e1071, dendextend, limma, pcaMethods, stats,
        RColorBrewer, circlize, dplyr, igraph, pheatmap,
        preprocessCore, tidyr, rlang, graphics, grDevices, utils,
        SummarizedExperiment, methods, S4Vectors, BiocGenerics,
        ggplot2, GGally, ggdendro, ggpubr, network, reshape2, ggtext,
        stringi
Encoding: UTF-8
LazyData: false
RoxygenNote: 7.2.2
VignetteBuilder: knitr
biocViews: Software, ResearchField, Proteomics
Suggests: testthat, knitr, rgl, sna, ClueR, directPA, rmarkdown,
        org.Rn.eg.db, org.Mm.eg.db, reactome.db, annotate, BiocStyle,
        stringr, calibrate
git_url: https://git.bioconductor.org/packages/PhosR
git_branch: RELEASE_3_21
git_last_commit: 7a08968
git_last_commit_date: 2025-05-08
Repository: Bioconductor 3.21
Date/Publication: 2025-05-08
NeedsCompilation: no
Packaged: 2025-05-09 01:36:30 UTC; biocbuild
Author: Pengyi Yang [aut],
  Taiyun Kim [aut, cre],
  Hani Jieun Kim [aut]
Maintainer: Taiyun Kim <taiyun.kim91@gmail.com>
Built: R 4.5.0; ; 2025-05-09 13:40:22 UTC; windows
