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

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
See More
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