MsFeatures
Functionality for Mass Spectrometry Features
Bioconductor version: 3.23 · Package version: 1.20.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
The MsFeature package defines functionality for Mass Spectrometry features. This includes functions to group (LC-MS) features based on some of their properties, such as retention time (coeluting features), or correlation of signals across samples. This packge hence allows to group features, and its results can be used as an input for the `QFeatures` package which allows to aggregate abundance levels of features within each group. This package defines concepts and functions for base and common data types, implementations for more specific data types are expected to be implemented in the respective packages (such as e.g. `xcms`). All functionality of this package is implemented in a modular way which allows combination of different grouping approaches and enables its re-use in other R packages.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MsFeatures")Details
| Maintainer | Johannes Rainer <Johannes.Rainer@eurac.edu> |
| Author | Johannes Rainer [aut, cre] (ORCID: <https://orcid.org/0000-0002-6977-7147>), Johan Lassen [ctb] (ORCID: <https://orcid.org/0000-0002-0452-566X>) |
| License | Artistic-2.0 |
| URL | https://github.com/RforMassSpectrometry/MsFeatures |
| Bug Reports | https://github.com/RforMassSpectrometry/MsFeatures/issues |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | Infrastructure, MassSpectrometry, Metabolomics, Software |
| Package Short Url | https://bioconductor.org/packages/MsFeatures/ |
Citation
From within R, enter citation("MsFeatures"):
Johannes Rainer. MsFeatures: Functionality for Mass Spectrometry Features. doi:10.18129/B9.bioc.MsFeatures, R package version 1.20.0, https://bioconductor.org/packages/MsFeatures.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | MsFeatures_1.20.0.tar.gz |
| Windows binary (x86_64) | MsFeatures_1.20.0.zip |
| macOS binary (arm64) | MsFeatures_1.20.0.tgz |
| macOS binary (x86_64) | MsFeatures_1.20.0.tgz |
Dependencies
Depends: R (>= 4.0)
Imports: methods, ProtGenerics (>= 1.23.5), MsCoreUtils, SummarizedExperiment, stats
Suggests: testthat, roxygen2, BiocStyle, pheatmap, knitr, rmarkdown