DOI: 10.18129/B9.bioc.MSstatsShiny  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see MSstatsShiny.

MSstats GUI for Statistical Anaylsis of Proteomics Experiments

Bioconductor version: 3.16

MSstatsShiny is an R-Shiny graphical user interface (GUI) integrated with the R packages MSstats, MSstatsTMT, and MSstatsPTM. It provides a point and click end-to-end analysis pipeline applicable to a wide variety of experimental designs. These include data-dependedent acquisitions (DDA) which are label-free or tandem mass tag (TMT)-based, as well as DIA, SRM, and PRM acquisitions and those targeting post-translational modifications (PTMs). The application automatically saves users selections and builds an R script that recreates their analysis, supporting reproducible data analysis.

Author: Devon Kohler [aut, cre], Deril Raju [aut], Maanasa Kaza [aut], Cristina Pasi [aut], Ting Huang [aut], Mateusz Staniak [aut], Dhaval Mohandas [aut], Eduard Sabido [aut], Meena Choi [aut], Olga Vitek [aut]

Maintainer: Devon Kohler <kohler.d at>

Citation (from within R, enter citation("MSstatsShiny")):


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PDF R Script MSstatsPTM LabelFree Workflow
PDF   Reference Manual


biocViews DifferentialExpression, GUI, ImmunoOncology, MassSpectrometry, Normalization, OneChannel, Proteomics, QualityControl, ShinyApps, Software, TwoChannel
Version 1.0.10
In Bioconductor since BioC 3.16 (R-4.2) (< 6 months)
License Artistic-2.0
Depends R (>= 4.2)
Imports shiny, shinyBS, shinyjs, shinybusy, dplyr, ggplot2, data.table, Hmisc, MSstats, MSstatsTMT, MSstatsPTM, MSstatsConvert, gplots, marray, DT, ggrepel, uuid, utils, stats, htmltools, methods, tidyr, grDevices, graphics
Suggests rmarkdown, tinytest, sessioninfo, knitr
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