DOI: 10.18129/B9.bioc.lipidr    

This is the development version of lipidr; for the stable release version, see lipidr.

Data Mining and Analysis of Lipidomics Datasets

Bioconductor version: Development (3.15)

lipidr an easy-to-use R package implementing a complete workflow for downstream analysis of targeted and untargeted lipidomics data. lipidomics results can be imported into lipidr as a numerical matrix or a Skyline export, allowing integration into current analysis frameworks. Data mining of lipidomics datasets is enabled through integration with Metabolomics Workbench API. lipidr allows data inspection, normalization, univariate and multivariate analysis, displaying informative visualizations. lipidr also implements a novel Lipid Set Enrichment Analysis (LSEA), harnessing molecular information such as lipid class, total chain length and unsaturation.

Author: Ahmed Mohamed <mohamed at>, Ahmed Mohamed <ahmed.mohamed at>, Jeffrey Molendijk <Jeffrey.Molendijk at>

Maintainer: Ahmed Mohamed <mohamed at>

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


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biocViews Lipidomics, MassSpectrometry, Normalization, QualityControl, Software, Visualization
Version 2.9.0
In Bioconductor since BioC 3.9 (R-3.6) (2.5 years)
License MIT + file LICENSE
Depends R (>= 3.6.0), SummarizedExperiment
Imports methods, stats, utils, data.table, S4Vectors, rlang, dplyr, tidyr, forcats, ggplot2, limma, fgsea, ropls, imputeLCMD, magrittr
Suggests knitr, rmarkdown, BiocStyle, ggrepel, plotly, iheatmapr, spelling, testthat
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