QFeatures

DOI: 10.18129/B9.bioc.QFeatures    

Quantitative features for mass spectrometry data

Bioconductor version: Release (3.12)

The QFeatures infrastructure enables the management and processing of quantitative features for high-throughput mass spectrometry assays. It provides a familiar Bioconductor user experience to manages quantitative data across different assay levels (such as peptide spectrum matches, peptides and proteins) in a coherent and tractable format.

Author: Laurent Gatto [aut, cre] , Christophe Vanderaa [aut]

Maintainer: Laurent Gatto <laurent.gatto at uclouvain.be>

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

Installation

To install this package, start R (version "4.0") and enter:

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

BiocManager::install("QFeatures")

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("QFeatures")

 

HTML R Script Processing quantitative proteomics data with QFeatures
HTML R Script Quantitative features for mass spectrometry data
PDF   Reference Manual
Text   NEWS

Details

biocViews Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software
Version 1.0.0
In Bioconductor since BioC 3.12 (R-4.0) (< 6 months)
License Artistic-2.0
Depends R (>= 4.0), MultiAssayExperiment
Imports methods, stats, utils, S4Vectors, IRanges, SummarizedExperiment, BiocGenerics, ProtGenerics(>= 1.19.3), AnnotationFilter, lazyeval, Biobase, MsCoreUtils(>= 1.1.2)
LinkingTo
Suggests SingleCellExperiment, msdata, ggplot2, gplots, dplyr, limma, magrittr, DT, shiny, shinydashboard, testthat, knitr, BiocStyle, rmarkdown, vsn, preprocessCore, matrixStats, imputeLCMD, pcaMethods, impute, norm
SystemRequirements
Enhances
URL https://github.com/RforMassSpectrometry/QFeatures
BugReports https://github.com/RforMassSpectrometry/QFeatures/issues
Depends On Me scp
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package QFeatures_1.0.0.tar.gz
Windows Binary QFeatures_1.0.0.zip
macOS 10.13 (High Sierra) QFeatures_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/QFeatures
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/QFeatures
Package Short Url https://bioconductor.org/packages/QFeatures/
Package Downloads Report Download Stats

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