MsBackendRawFileReader

DOI: 10.18129/B9.bioc.MsBackendRawFileReader  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see MsBackendRawFileReader.

Mass Spectrometry Backend for Reading Thermo Fisher Scientific raw Files

Bioconductor version: 3.16

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 (Kockmann T. et al. (2020) ) Methods defined in this package are supposed to extend the Spectra Bioconductor package.

Author: Christian Panse [aut, cre] , Tobias Kockmann [aut]

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

Installation

To install this package, start R (version "4.2") and enter:

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

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")

 

HTML	R Script	On Using and Extending the `MsBackendRawFileReader` Backend.
PDF		Reference Manual
Text		NEWS
Text		INSTALL

Details

biocViews	MassSpectrometry, Metabolomics, Proteomics, Software
Version	1.4.0
In Bioconductor since	BioC 3.14 (R-4.1) (1.5 years)
License	GPL-3
Depends	R (>= 4.1), methods, Spectra(>= 1.5.8)
Imports	MsCoreUtils, S4Vectors, IRanges, rawrr(>= 1.3.6), utils, BiocParallel
LinkingTo
Suggests	BiocStyle(>= 2.5), ExperimentHub, MsBackendMgf, knitr, lattice, mzR, protViz (>= 0.7), rmarkdown, tartare(>= 1.5), testthat
SystemRequirements	mono-runtime 4.x or higher (including System.Data library) on Linux/macOS, .Net Framework (>= 4.5.1) on Microsoft Windows.
Enhances
URL	https://github.com/fgcz/MsBackendRawFileReader
BugReports	https://github.com/fgcz/MsBackendRawFileReader/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	MsBackendRawFileReader_1.4.0.tar.gz
Windows Binary	MsBackendRawFileReader_1.4.0.zip
macOS Binary (x86_64)	MsBackendRawFileReader_1.4.0.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