Package: mspms
Type: Package
Title: Tools for the analysis of MSP-MS data
Version: 1.3.1
Authors@R: person("Charlie", "Bayne", email = "baynec2@gmail.com",
    role = c("aut", "cre"),comment=c(ORCID="0000-0003-1870-5298"))
Description: This package provides functions for the analysis of data generated 
    by the multiplex substrate profiling by mass spectrometry for proteases 
    (MSP-MS) method. Data exported from upstream proteomics software is accepted 
    as input and subsequently processed for analysis. 
    Tools for statistical analysis, visualization, and interpretation of 
    the data are provided. 
License: MIT + file LICENSE
Encoding: UTF-8
RoxygenNote: 7.3.3
Depends: 
    R (>= 4.4.0)
biocViews: Proteomics, MassSpectrometry, Preprocessing
LazyData: true
Imports: 
    QFeatures,
    limma,
    SummarizedExperiment,
    magrittr,
    rlang,
    dplyr,
    purrr,
    stats,
    tidyr,
    stringr,
    ggplot2,
    ggseqlogo,
    heatmaply,
    readr,
    rstatix,
    tibble,
    ggpubr,
    imputeLCMD
Suggests: 
    knitr,
    testthat (>= 3.0.0),
    downloadthis,
    DT,
    rmarkdown,
    BiocStyle
Config/testthat/edition: 3
URL: https://github.com/baynec2/mspms
BugReports: https://github.com/baynec2/mspms/issues
VignetteBuilder: knitr
git_url: https://git.bioconductor.org/packages/mspms
git_branch: devel
git_last_commit: 20f2c4b
git_last_commit_date: 2025-11-12
Repository: Bioconductor 3.23
