Bioconductor release scheduled for October 29

Chromatograms

This is the development version of Chromatograms; to use it, please install the devel version of Bioconductor.

Infrastructure for Chromatographic Mass Spectrometry Data


Bioconductor version: Development (3.22)

The Chromatograms packages defines an efficient infrastructure for storing and handling of chromatographic mass spectrometry data. It provides different implementations of *backends* to store and represent the data. Such backends can be optimized for small memory footprint or fast data access/processing. A lazy evaluation queue and chunk-wise processing capabilities ensure efficient analysis of also very large data sets.

Author: Johannes Rainer [aut] ORCID iD ORCID: 0000-0002-6977-7147 , Laurent Gatto [aut] ORCID iD ORCID: 0000-0002-1520-2268 , Philippine Louail [aut, cre] (ORCID: ORCID iD ORCID: 0009-0007-5429-6846 , fnd: European Union HORIZON-MSCA-2021 project Grant No. 101073062: HUMAN – Harmonising and Unifying Blood Metabolic Analysis Networks)

Maintainer: Philippine Louail <philippine.louail at outlook.com>

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

Installation

To install this package, start R (version "4.5") and enter:


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

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

BiocManager::install("Chromatograms")

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("Chromatograms")
Creating new `ChromBackend` class for Chromatograms HTML R Script
Using and understanding a Chromatograms object HTML R Script
Reference Manual PDF

Details

biocViews Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software
Version 0.99.6
In Bioconductor since BioC 3.22 (R-4.5)
License Artistic-2.0
Depends BiocParallel, ProtGenerics(>= 1.39.2), R (>= 4.5.0)
Imports methods, S4Vectors, MsCoreUtils(>= 1.7.5), Spectra
System Requirements
URL https://github.com/RforMassSpectrometry/Chromatograms
Bug Reports https://github.com/RforMassSpectrometry/Chromatograms/issues
See More
Suggests msdata(>= 0.19.3), roxygen2, BiocStyle(>= 2.5.19), testthat, knitr (>= 1.1.0), rmarkdown, mzR(>= 2.41.4), MsBackendMetaboLights(>= 1.3.1), vdiffr, RColorBrewer
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Package Archives

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

Source Package Chromatograms_0.99.6.tar.gz
Windows Binary (x86_64)
macOS Binary (x86_64) Chromatograms_0.99.6.tgz
macOS Binary (arm64) Chromatograms_0.99.6.tgz
Source Repository git clone https://git.bioconductor.org/packages/Chromatograms
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Chromatograms
Bioc Package Browser https://code.bioconductor.org/browse/Chromatograms/
Package Short Url https://bioconductor.org/packages/Chromatograms/
Package Downloads Report Download Stats