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MsExperiment
This is thedevelopment version of MsExperiment; for the stable release version, seeMsExperiment.
Infrastructure for Mass Spectrometry Experiments
Bioconductor version: Development (3.23)
Infrastructure to store and manage all aspects related to a complete proteomics or metabolomics mass spectrometry (MS) experiment. The MsExperiment package provides light-weight and flexible containers for MS experiments building on the new MS infrastructure provided by the Spectra, QFeatures and related packages. Along with raw data representations, links to original data files and sample annotations, additional metadata or annotations can also be stored within the MsExperiment container. To guarantee maximum flexibility only minimal constraints are put on the type and content of the data within the containers.
Author: Laurent Gatto [aut, cre]
ORCID: 0000-0002-1520-2268, Johannes Rainer [aut] ORCID: 0000-0002-6977-7147, Sebastian Gibb [aut] ORCID: 0000-0001-7406-4443, Tuomas Borman [ctb] ORCID: 0000-0002-8563-8884
Maintainer: Laurent Gatto <laurent.gatto at uclouvain.be>
citation("MsExperiment")):Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")# The following initializes usage of Bioc develBiocManager::install(version='devel')BiocManager::install("MsExperiment")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("MsExperiment")| Managing Mass Spectrometry Experiments | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport,ExperimentalDesign,Infrastructure,MassSpectrometry,Metabolomics,Proteomics,Software |
| Version | 1.13.0 |
| In Bioconductor since | BioC 3.16 (R-4.2) (3 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.2),ProtGenerics(>= 1.35.2) |
| Imports | methods,S4Vectors,IRanges,Spectra,SummarizedExperiment,QFeatures,DBI,BiocGenerics |
| System Requirements | |
| URL | https://github.com/RforMassSpectrometry/MsExperiment |
| Bug Reports | https://github.com/RforMassSpectrometry/MsExperiment/issues |
See More
| Suggests | testthat,knitr (>= 1.1.0),roxygen2,BiocStyle(>= 2.5.19),rmarkdown,rpx,mzR,msdata,MsBackendSql(>= 1.3.2),RSQLite |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | MsQuality,squallms,xcms |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | MsExperiment_1.13.0.tar.gz |
| Windows Binary (x86_64) | MsExperiment_1.13.0.zip |
| macOS Binary (x86_64) | MsExperiment_1.13.0.tgz |
| macOS Binary (arm64) | MsExperiment_1.13.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MsExperiment |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MsExperiment |
| Bioc Package Browser | https://code.bioconductor.org/browse/MsExperiment/ |
| Package Short Url | https://bioconductor.org/packages/MsExperiment/ |
| Package Downloads Report | Download Stats |