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>

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

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")

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	1.4.0
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	MsCoreUtils, S4Vectors, IRanges, rawrr(>= 1.3.6), 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
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	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
Old Source Packages for BioC 3.16	Source Archive