DOI: 10.18129/B9.bioc.MSGFgui    

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This is the development version of MSGFgui; for the stable release version, see MSGFgui.

A shiny GUI for MSGFplus

Bioconductor version: Development (3.14)

This package makes it possible to perform analyses using the MSGFplus package in a GUI environment. Furthermore it enables the user to investigate the results using interactive plots, summary statistics and filtering. Lastly it exposes the current results to another R session so the user can seamlessly integrate the gui into other workflows.

Author: Thomas Lin Pedersen

Maintainer: Thomas Lin Pedersen <thomasp85 at>

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


To install this package, start R (version "4.1") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



HTML R Script Using MSGFgui
PDF   Reference Manual
Text   NEWS


biocViews GUI, ImmunoOncology, MassSpectrometry, Proteomics, Software, Visualization
Version 1.27.1
In Bioconductor since BioC 3.0 (R-3.1) (7 years)
License GPL (>= 2)
Depends mzR, xlsx
Imports shiny, mzID(>= 1.2), MSGFplus, shinyFiles (>= 0.4.0), tools
Suggests knitr, testthat
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package MSGFgui_1.27.1.tar.gz
Windows Binary
macOS 10.13 (High Sierra) MSGFgui_1.27.1.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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