Package: PepMapViz
Title: A Versatile Toolkit for Peptide Mapping, Visualization, and
        Comparative Exploration
Version: 1.1.0
Authors@R: c(
    person(given = "Zhenru", family = "Zhou", email = "zhou.zhenru@gene.com", role = c("aut", "cre")),
    person(given = "Qui", family = "Phung", email = "phung.qui@gene.com", role = c("aut")),
    person(given = "Corey", family = "Bakalarski", email = "bakalarski.corey@gene.com", role = c("aut")))
Description: A versatile R visualization package that empowers
        researchers with comprehensive visualization tools for
        seamlessly mapping peptides to protein sequences, identifying
        distinct domains and regions of interest, accentuating
        mutations, and highlighting post-translational modifications,
        all while enabling comparisons across diverse experimental
        conditions. Potential applications of 'PepMapViz' include the
        visualization of cross-software mass spectrometry results at
        the peptide level for specific protein and domain details in a
        linearized format and post-translational modification coverage
        across different experimental conditions; unraveling insights
        into disease mechanisms. It also enables visualization of Major
        histocompatibility complex-presented peptide clusters in
        different antibody regions predicting immunogenicity in
        antibody drug development.
License: MIT + file LICENSE
Encoding: UTF-8
RoxygenNote: 7.3.2
Imports: shiny, ggplot2, stringr, ggforce, ggh4x, ggnewscale,
        data.table, rlang, DT
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), mzID, MSnbase
Note: The package 'MSnbase' is used for parsing and processing mzTab
        files. While its non-portability limits usage on some
        platforms, it is essential for enabling analysis and
        integration of mzTab data in 'PepMapViz'. However, if the input
        file is not in mzTab format, 'MSnbase' is not required, and the
        package can function without it.
Config/testthat/edition: 3
VignetteBuilder: knitr
biocViews: Immunogenicity, MassSpectrometry, Proteomics, Peptidomics,
        Software, Visualization
NeedsCompilation: no
Packaged: 2026-06-20 09:11:09 UTC; root
Author: Zhenru Zhou [aut, cre], Qui Phung [aut], Corey Bakalarski [aut]
Maintainer: Zhenru Zhou <zhou.zhenru@gene.com>
Repository: https://cran.r-universe.dev
Date/Publication: 2025-06-25 17:10:06 UTC
RemoteUrl: https://github.com/cran/PepMapViz
RemoteRef: HEAD
RemoteSha: f357c66dca8a14b981fb8164428988690e6aef97