MsBackendMetaboLights
This is the development version of MsBackendMetaboLights; for the stable release version, see MsBackendMetaboLights.
Retrieve Mass Spectrometry Data from MetaboLights
Bioconductor version: Development (3.21)
MetaboLights is one of the main public repositories for storage of metabolomics experiments, which includes analysis results as well as raw data. The MsBackendMetaboLights package provides functionality to retrieve and represent mass spectrometry (MS) data from MetaboLights. Data files are downloaded and cached locally avoiding repetitive downloads. MS data from metabolomics experiments can thus be directly and seamlessly integrated into R-based analysis workflows with the Spectra and MsBackendMetaboLights package.
Author: Johannes Rainer [aut, cre] (ORCID:
Maintainer: Johannes Rainer <Johannes.Rainer at eurac.edu>
citation("MsBackendMetaboLights")):
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("MsBackendMetaboLights")
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("MsBackendMetaboLights")| Retrieve and Use Mass Spectrometry Data from MetaboLights | HTML | R Script |
| Reference Manual |
Details
| biocViews | DataImport, Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software |
| Version | 1.1.0 |
| In Bioconductor since | BioC 3.20 (R-4.4) (< 6 months) |
| License | Artistic-2.0 |
| Depends | R (>= 4.2.0), Spectra(>= 1.15.12) |
| Imports | curl, ProtGenerics, BiocFileCache, S4Vectors, methods |
| System Requirements | |
| URL | https://github.com/RforMassSpectrometry/MsBackendMetaboLights |
| Bug Reports | https://github.com/RforMassSpectrometry/MsBackendMetaboLights/issues |
See More
| Suggests | testthat, rmarkdown, mzR, knitr, BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | MsBackendMetaboLights_1.1.0.tar.gz |
| Windows Binary (x86_64) | MsBackendMetaboLights_1.1.0.zip |
| macOS Binary (x86_64) | MsBackendMetaboLights_1.1.0.tgz |
| macOS Binary (arm64) | MsBackendMetaboLights_1.1.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MsBackendMetaboLights |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MsBackendMetaboLights |
| Bioc Package Browser | https://code.bioconductor.org/browse/MsBackendMetaboLights/ |
| Package Short Url | https://bioconductor.org/packages/MsBackendMetaboLights/ |
| Package Downloads Report | Download Stats |