rgoslin

Lipid Shorthand Name Parsing and Normalization

Bioconductor version: Release (3.17)

The R implementation for the Grammar of Succint Lipid Nomenclature parses different short hand notation dialects for lipid names. It normalizes them to a standard name. It further provides calculated monoisotopic masses and sum formulas for each successfully parsed lipid name and supplements it with LIPID MAPS Category and Class information. Also, the structural level and further structural details about the head group, fatty acyls and functional groups are returned, where applicable.

Author: Nils Hoffmann [aut, cre] , Dominik Kopczynski [aut]

Maintainer: Nils Hoffmann <nils.hoffmann at cebitec.uni-bielefeld.de>

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

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("rgoslin")

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("rgoslin")

Using R Goslin to parse and normalize lipid nomenclature	HTML	R Script
Reference Manual	PDF
NEWS	Text
LICENSE	Text

Details

biocViews	Lipidomics, MassSpectrometry, Metabolomics, Normalization, Preprocessing, Software
Version	1.4.0
In Bioconductor since	BioC 3.15 (R-4.2) (1.5 years)
License	MIT + file LICENSE
Depends
Imports	Rcpp (>= 1.0.3), dplyr
Linking To	Rcpp
Suggests	testthat (>= 2.1.0), BiocStyle, knitr, rmarkdown, kableExtra, BiocManager, stringr, stringi, ggplot2, tibble, lipidr
System Requirements
Enhances
URL	https://github.com/lifs-tools/rgoslin
Bug Reports	https://github.com/lifs-tools/rgoslin/issues

Depends On Me
Imports Me
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Build Report

Package Archives

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

Source Package	rgoslin_1.4.0.tar.gz
Windows Binary	rgoslin_1.4.0.zip (64-bit only)
macOS Binary (x86_64)	rgoslin_1.4.0.tgz
macOS Binary (arm64)	rgoslin_1.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/rgoslin
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/rgoslin
Bioc Package Browser	https://code.bioconductor.org/browse/rgoslin/
Package Short Url	https://bioconductor.org/packages/rgoslin/
Package Downloads Report	Download Stats