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

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DOI: 10.18129/B9.bioc.MsBackendRawFileReader

Bioconductor version: Development (3.23)

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] ORCID iD ORCID: 0000-0003-1975-3064 , Tobias Kockmann [aut] ORCID iD ORCID: 0000-0002-1847-885X , Roger Gine Bertomeu [ctb] ORCID iD ORCID: 0000-0003-0288-9619

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

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

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 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

NEWS Text

INSTALL Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews MassSpectrometry, Metabolomics, Proteomics, Software

Version 1.17.0

In Bioconductor since BioC 3.14 (R-4.1) (4 years)

License GPL-3

Depends R (>= 4.1), methods, Spectra(>= 1.15.10)

Imports ProtGenerics(>= 1.35.3), MsCoreUtils, S4Vectors, IRanges, rawrr(>= 1.17.2), 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

Suggests BiocStyle(>= 2.5), ExperimentHub, MsBackendMgf, knitr, lattice, mzR, protViz (>= 0.7), rmarkdown, tartare(>= 1.5), testthat

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

Source Package MsBackendRawFileReader_1.17.0.tar.gz

Windows Binary (x86_64)

macOS Binary (x86_64)

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/

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