QFeatures
This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see QFeatures.
Quantitative features for mass spectrometry data
Bioconductor version: 3.15
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("QFeatures")
):
Installation
To install this package, start R (version "4.2") and enter:
if (!require("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")
Data visualization from a QFeatures object | HTML | R Script |
Processing quantitative proteomics data with QFeatures | HTML | R Script |
Quantitative features for mass spectrometry data | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software |
Version | 1.6.0 |
In Bioconductor since | BioC 3.12 (R-4.0) (3.5 years) |
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), igraph, plotly |
System Requirements | |
URL | https://github.com/RforMassSpectrometry/QFeatures |
Bug Reports | https://github.com/RforMassSpectrometry/QFeatures/issues |
See More
Suggests | SingleCellExperiment, HDF5Array, msdata, ggplot2, gplots, dplyr, limma, magrittr, DT, shiny, shinydashboard, testthat, knitr, BiocStyle, rmarkdown, vsn, preprocessCore, matrixStats, imputeLCMD, pcaMethods, impute, norm, ComplexHeatmap |
Linking To | |
Enhances | |
Depends On Me | msqrob2, scp, scpdata |
Imports Me | MetaboAnnotation, PSMatch |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | QFeatures_1.6.0.tar.gz |
Windows Binary | QFeatures_1.6.0.zip |
macOS Binary (x86_64) | QFeatures_1.6.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/QFeatures |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/QFeatures |
Bioc Package Browser | https://code.bioconductor.org/browse/QFeatures/ |
Package Short Url | https://bioconductor.org/packages/QFeatures/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.15 | Source Archive |