MsFeatures
This is the development version of MsFeatures; for the stable release version, see MsFeatures.
Functionality for Mass Spectrometry Features
Bioconductor version: Development (3.21)
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.
Author: Johannes Rainer [aut, cre] (ORCID:
Maintainer: Johannes Rainer <Johannes.Rainer at eurac.edu>
citation("MsFeatures")):
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("MsFeatures")
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("MsFeatures")| Grouping Mass Spectrometry Features | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Infrastructure, MassSpectrometry, Metabolomics, Software |
| Version | 1.15.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (3.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.1) |
| Imports | methods, ProtGenerics(>= 1.23.5), MsCoreUtils, SummarizedExperiment, stats |
| System Requirements | |
| URL | https://github.com/RforMassSpectrometry/MsFeatures |
| Bug Reports | https://github.com/RforMassSpectrometry/MsFeatures/issues |
See More
| Suggests | testthat, roxygen2, BiocStyle, pheatmap, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | xcms |
| Suggests Me | qmtools |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | MsFeatures_1.15.0.tar.gz |
| Windows Binary (x86_64) | MsFeatures_1.15.0.zip (64-bit only) |
| macOS Binary (x86_64) | MsFeatures_1.15.0.tgz |
| macOS Binary (arm64) | MsFeatures_1.15.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MsFeatures |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MsFeatures |
| Bioc Package Browser | https://code.bioconductor.org/browse/MsFeatures/ |
| Package Short Url | https://bioconductor.org/packages/MsFeatures/ |
| Package Downloads Report | Download Stats |