QFeatures
This is the development version of QFeatures; for the stable release version, see QFeatures.
Quantitative features for mass spectrometry data
Bioconductor version: Development (3.22)
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]
, Léopold Guyot [ctb]
Maintainer: Laurent Gatto <laurent.gatto at uclouvain.be>
citation("QFeatures")):
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("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 |
| Load data using readQFeatures() | 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 | 1.19.2 |
| In Bioconductor since | BioC 3.12 (R-4.0) (5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.1), MultiAssayExperiment(>= 1.33.6) |
| Imports | methods, stats, utils, S4Vectors, IRanges, SummarizedExperiment, BiocGenerics(>= 0.53.4), ProtGenerics(>= 1.35.1), AnnotationFilter, lazyeval, Biobase, MsCoreUtils(>= 1.7.2), igraph, grDevices, plotly, tidyr, tidyselect, reshape2 |
| System Requirements | |
| URL | https://github.com/RforMassSpectrometry/QFeatures |
| Bug Reports | https://github.com/RforMassSpectrometry/QFeatures/issues |
See More
| Suggests | SingleCellExperiment, MsDataHub(>= 1.3.3), Matrix, HDF5Array, msdata, ggplot2, gplots, dplyr, limma, DT, shiny, shinydashboard, testthat, knitr, BiocStyle, rmarkdown, vsn, preprocessCore, matrixStats, imputeLCMD, pcaMethods, impute, norm, ComplexHeatmap |
| Linking To | |
| Enhances | |
| Depends On Me | hdxmsqc, msqrob2, scp, scpdata |
| Imports Me | MetaboAnnotation, MsExperiment, mspms, PSMatch |
| Suggests Me | MsDataHub |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | QFeatures_1.19.2.tar.gz |
| Windows Binary (x86_64) | QFeatures_1.19.2.zip |
| macOS Binary (x86_64) | QFeatures_1.19.2.tgz |
| macOS Binary (arm64) | QFeatures_1.19.2.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 |