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biodbLipidmaps

An R Bioconductor package for accessing Lipidmaps. online database, based on Bioconductor package/framework biodb.

Introduction

biodbLipidmaps is an extension package of the biodb package. It allows to connect to Lipidmaps for retrieving entries, and searching for entries using the LMSDSearch web service.

Examples

Getting a single entry:

mybiodb <- biodb::newInst()
conn <- mybiodb$getFactory()$createConn('lipidmaps.structure')
entries <- conn$getEntry('LMFA00000001')

Installation

Install the latest stable version using Bioconductor:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install('biodbLipidmaps')

Documentation

See the introduction vignette:

vignette('biodbLipidmaps', package='biodbLipidmaps')

Citations

  • Sud M., Fahy E., Cotter D., Brown A., Dennis E., Glass C., Murphy R., Raetz C., Russell D., and Subramaniam S. LMSD: LIPID MAPS structure database. Nucleic Acids Research 35, D527-32 (2006), https://doi.org/10.1093/nar/gkl838.