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Exploratory Data Analysis of LC-MS/MS data by spectral counts

Bioconductor version: Release (3.18)

Exploratory data analysis to assess the quality of a set of LC-MS/MS experiments, and visualize de influence of the involved factors.

Author: Josep Gregori, Alex Sanchez, and Josep Villanueva

Maintainer: Josep Gregori <josep.gregori at gmail.com>

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


To install this package, start R (version "4.3") and enter:

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


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:

msmsEDA: Batch effects detection in LC-MSMS experiments PDF R Script
Reference Manual PDF


biocViews ImmunoOncology, MassSpectrometry, Proteomics, Software
Version 1.40.0
In Bioconductor since BioC 2.13 (R-3.0) (10.5 years)
License GPL-2
Depends R (>= 3.0.1), MSnbase
Imports MASS, gplots, RColorBrewer
System Requirements
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Linking To
Depends On Me msmsTests
Imports Me
Suggests Me Harman, RforProteomics
Links To Me
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Package Archives

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

Source Package msmsEDA_1.40.0.tar.gz
Windows Binary msmsEDA_1.40.0.zip
macOS Binary (x86_64) msmsEDA_1.40.0.tgz
macOS Binary (arm64) msmsEDA_1.40.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/msmsEDA
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/msmsEDA
Bioc Package Browser https://code.bioconductor.org/browse/msmsEDA/
Package Short Url https://bioconductor.org/packages/msmsEDA/
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