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Bioconductor - adductomicsR (development version)

adductomicsR

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

Processing of adductomic mass spectral datasets

Bioconductor version: Development (3.22)

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")): Installation

To install this package, start R (version "4.5") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("adductomicsR")

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("adductomicsR")
Details biocViews DataImport, GUI, MassSpectrometry, Metabolomics, Software, ThirdPartyClient Version 1.25.0 In Bioconductor since BioC 3.9 (R-3.6) (6 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 (>= 0.3.3.3.0), 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 URL Bug Reports https://github.com/JosieLHayes/adductomicsR/issues See More Package Archives

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

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