A Versatile Toolkit for Peptide Mapping, Visualization, and Comparative Exploration R package PepMapViz version 1.1.0 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. Software Imports: shiny, ggplot2, stringr, ggforce, ggh4x, ggnewscale, data.table, rlang, DT Suggests: knitr, rmarkdown, testthat (>= 3.0.0), mzID, MSnbase Zhenru Zhou <zhou.zhenru@gene.com> Comprehensive R Archive Network (CRAN) Zhenru Zhou [aut, cre], Qui Phung [aut], Corey Bakalarski [aut] MIT + file LICENSE (https://CRAN.R-project.org/package=PepMapViz/LICENSE) 2025-06-25 application/tgz https://CRAN.R-project.org/package=PepMapViz doi:10.32614/CRAN.package.PepMapViz