Type: Package
Package: MSstatsLiP
Title: LiP Significance Analysis in shotgun mass spectrometry-based
        proteomic experiments
Version: 1.14.1
Date: 2024-3-19
Description: Tools for LiP peptide and protein significance analysis. Provides 
              functions for summarization, estimation of LiP peptide abundance, 
              and detection of changes across conditions. Utilizes functionality
              across the MSstats family of packages.
Authors@R: c(person("Devon", "Kohler", email = "kohler.d@northeastern.edu", role = c("aut", "cre")),
            person("Tsung-Heng", "Tsai", email = "tsai.tsungheng@gmail.com", role = "aut"),
            person("Ting", "Huang", email = "thuang0703@gmail.com", role=c("aut")),
            person("Mateusz", "Staniak", email = "mtst@mstaniak.pl", role = c("aut")),
          	person("Meena", "Choi", email = "mnchoi67@gmail.com", role="aut"),
            person("Valentina", "Cappelletti", email = "valentina.cappelletti@imsb.biol.ethz.ch", role="aut"),
            person("Liliana", "Malinovska", email = "malinovska@imsb.biol.ethz.ch", role="aut"),
          	person("Olga", "Vitek", email = "o.vitek@northeastern.edu", role = "aut"))
License: Artistic-2.0
Depends: R (>= 4.1)
Imports: dplyr, gridExtra, stringr, ggplot2, grDevices, MSstats,
        MSstatsConvert, data.table, Biostrings, MSstatsPTM, Rcpp,
        checkmate, factoextra, ggpubr, purrr, tibble, tidyr, tidyverse,
        scales, stats
Suggests: BiocStyle, knitr, rmarkdown, covr, tinytest, gghighlight
LinkingTo: Rcpp
VignetteBuilder: knitr
biocViews: ImmunoOncology, MassSpectrometry, Proteomics, Software,
        DifferentialExpression, OneChannel, TwoChannel, Normalization,
        QualityControl
BugReports: https://github.com/Vitek-Lab/MSstatsLiP/issues
Encoding: UTF-8
LazyData: TRUE
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
git_url: https://git.bioconductor.org/packages/MSstatsLiP
git_branch: RELEASE_3_21
git_last_commit: 0915f78
git_last_commit_date: 2025-05-27
Repository: Bioconductor 3.21
Date/Publication: 2025-05-29
NeedsCompilation: yes
Packaged: 2025-05-30 00:43:35 UTC; biocbuild
Author: Devon Kohler [aut, cre],
  Tsung-Heng Tsai [aut],
  Ting Huang [aut],
  Mateusz Staniak [aut],
  Meena Choi [aut],
  Valentina Cappelletti [aut],
  Liliana Malinovska [aut],
  Olga Vitek [aut]
Maintainer: Devon Kohler <kohler.d@northeastern.edu>
Built: R 4.5.0; x86_64-w64-mingw32; 2025-05-30 13:42:20 UTC; windows
Archs: x64
