Package: MSstatsBioNet Type: Package Title: Network Analysis for MS-based Proteomics Experiments Version: 1.4.1 Authors@R: c( person("Anthony", "Wu", email = "wu.anthon@northeastern.edu", role = c("aut", "cre"), comment = c(ORCID = "0009-0001-7391-9902")), person("Olga", "Vitek", email = "o.vitek@northeastern.edu", role = "aut", comment=c(ORCID = "0000-0003-1728-1104"))) Description: A set of tools for network analysis using mass spectrometry-based proteomics data and network databases. The package takes as input the output of MSstats differential abundance analysis and provides functions to perform enrichment analysis and visualization in the context of prior knowledge from past literature. Notably, this package integrates with INDRA, which is a database of biological networks extracted from the literature using text mining techniques. License: file LICENSE Depends: R (>= 4.4.0), MSstats Imports: httr, jsonlite, r2r, tidyr, htmlwidgets, grDevices, stats, text2vec, stopwords, xml2, rentrez Suggests: data.table, BiocStyle, knitr, rmarkdown, testthat (>= 3.0.0), mockery, MSstatsConvert, shiny VignetteBuilder: knitr biocViews: ImmunoOncology, MassSpectrometry, Proteomics, Software, QualityControl, NetworkEnrichment, Network Encoding: UTF-8 URL: http://msstats.org, https://vitek-lab.github.io/MSstatsBioNet/ BugReports: https://groups.google.com/forum/#!forum/msstats Config/testthat/edition: 3 RoxygenNote: 7.3.3 Config/pak/sysreqs: cmake make libicu-dev libuv1-dev libxml2-dev libssl-dev Repository: Bioconductor 3.23 Date/Publication: 2026-05-01 03:48:25 UTC RemoteUrl: https://github.com/bioc/MSstatsBioNet RemoteRef: RELEASE_3_23 RemoteSha: 75d54f9c698c5070fe620b41d40e812d3ac92a84 NeedsCompilation: no Packaged: 2026-10-17 11:03:05 UTC; root Author: Anthony Wu [aut, cre] (ORCID: ), Olga Vitek [aut] (ORCID: ) Maintainer: Anthony Wu