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MsBackendRawFileReader

This is the development version of MsBackendRawFileReader; for the stable release version, see MsBackendRawFileReader.

Mass Spectrometry Backend for Reading Thermo Fisher Scientific raw Files


Bioconductor version: Development (3.19)

implements a MsBackend for the Spectra package using Thermo Fisher Scientific's NewRawFileReader .Net libraries. The package is generalizing the functionality introduced by the rawrr package Methods defined in this package are supposed to extend the Spectra Bioconductor package.

Author: Christian Panse [aut, cre] , Tobias Kockmann [aut] , Roger Gine Bertomeu [ctb]

Maintainer: Christian Panse <cp at fgcz.ethz.ch>

Citation (from within R, enter citation("MsBackendRawFileReader")):

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("MsBackendRawFileReader")

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("MsBackendRawFileReader")
On Using and Extending the `MsBackendRawFileReader` Backend. HTML R Script
Reference Manual PDF

Details

biocViews MassSpectrometry, Metabolomics, Proteomics, Software
Version 1.9.1
In Bioconductor since BioC 3.14 (R-4.1) (2.5 years)
License GPL-3
Depends R (>= 4.1), methods, Spectra(>= 1.5.8)
Imports ProtGenerics(>= 1.35.3), MsCoreUtils, S4Vectors, IRanges, rawrr(>= 1.10.1), utils, BiocParallel
System Requirements mono-runtime 4.x or higher (including System.Data library) on Linux/macOS, .Net Framework (>= 4.5.1) on Microsoft Windows.
URL https://github.com/fgcz/MsBackendRawFileReader
Bug Reports https://github.com/fgcz/MsBackendRawFileReader/issues
See More
Suggests BiocStyle(>= 2.5), ExperimentHub, MsBackendMgf, knitr, lattice, mzR, protViz (>= 0.7), rmarkdown, tartare(>= 1.5), testthat
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package MsBackendRawFileReader_1.9.1.tar.gz
Windows Binary MsBackendRawFileReader_1.9.1.zip
macOS Binary (x86_64) MsBackendRawFileReader_1.9.1.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/MsBackendRawFileReader
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/MsBackendRawFileReader
Bioc Package Browser https://code.bioconductor.org/browse/MsBackendRawFileReader/
Package Short Url https://bioconductor.org/packages/MsBackendRawFileReader/
Package Downloads Report Download Stats