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 package is for version 3.14 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see MSGFgui.

A shiny GUI for MSGFplus


Bioconductor version: 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 gmail.com>

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

Installation

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


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("MSGFgui")

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

Documentation

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

browseVignettes("MSGFgui")
Using MSGFgui HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews GUI, ImmunoOncology, MassSpectrometry, Proteomics, Software, Visualization
Version 1.28.0
In Bioconductor since BioC 3.0 (R-3.1) (9.5 years)
License GPL (>= 2)
Depends mzR, xlsx
Imports shiny, mzID(>= 1.2), MSGFplus, shinyFiles (>= 0.4.0), tools
System Requirements
URL
See More
Suggests knitr, testthat
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package MSGFgui_1.28.0.tar.gz
Windows Binary MSGFgui_1.28.0.zip (32- & 64-bit)
macOS 10.13 (High Sierra) MSGFgui_1.28.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/MSGFgui
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/MSGFgui
Package Short Url https://bioconductor.org/packages/MSGFgui/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.14 Source Archive