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Processing of adductomic mass spectral datasets

Bioconductor version: Release (3.18)

Processes MS2 data to identify potentially adducted peptides from spectra that has been corrected for mass drift and retention time drift and quantifies MS1 level mass spectral peaks.

Author: Josie Hayes <jlhayes1982 at gmail.com>

Maintainer: Josie Hayes <jlhayes1982 at gmail.com>

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


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:

Adductomics workflow HTML R Script
Reference Manual PDF


biocViews DataImport, GUI, MassSpectrometry, Metabolomics, Software, ThirdPartyClient
Version 1.18.0
In Bioconductor since BioC 3.9 (R-3.6) (5 years)
License Artistic-2.0
Depends R (>= 3.6), adductData, ExperimentHub, AnnotationHub
Imports parallel (>= 3.3.2), data.table (>= 1.10.4), OrgMassSpecR (>= 0.4.6), foreach (>= 1.4.3), mzR(>= 2.14.0), ade4 (>= 1.7.6), rvest (>= 0.3.2), pastecs (>= 1.3.18), reshape2 (>= 1.4.2), pracma (>= 2.0.4), DT (>= 0.2), fpc (>= 2.1.10), doSNOW (>= 1.0.14), fastcluster (>= 1.1.22), RcppEigen (>=, bootstrap (>= 2017.2), smoother (>= 1.1), dplyr (>= 0.7.5), zoo (>= 1.8), stats (>= 3.5.0), utils (>= 3.5.0), graphics (>= 3.5.0), grDevices (>= 3.5.0), methods (>= 3.5.0), datasets (>= 3.5.0)
System Requirements
Bug Reports https://github.com/JosieLHayes/adductomicsR/issues
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Suggests knitr (>= 1.15.1), rmarkdown (>= 1.5), Rdisop(>= 1.34.0), testthat
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Package Archives

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

Source Package adductomicsR_1.18.0.tar.gz
Windows Binary adductomicsR_1.18.0.zip
macOS Binary (x86_64) adductomicsR_1.18.0.tgz
macOS Binary (arm64) adductomicsR_1.18.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/adductomicsR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/adductomicsR
Bioc Package Browser https://code.bioconductor.org/browse/adductomicsR/
Package Short Url https://bioconductor.org/packages/adductomicsR/
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