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

Data Mining and Analysis of Lipidomics Datasets

Bioconductor version: Development (3.20)

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 [cre] , Ahmed Mohamed [aut], Jeffrey Molendijk [aut]

Maintainer: Ahmed Mohamed <mohamed at>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

lipidr_workflow HTML R Script
Reference Manual PDF


biocViews Lipidomics, MassSpectrometry, Normalization, QualityControl, Software, Visualization
Version 2.19.0
In Bioconductor since BioC 3.9 (R-3.6) (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
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Suggests knitr, rmarkdown, BiocStyle, ggrepel, plotly, spelling, testthat
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Follow Installation instructions to use this package in your R session.

Source Package lipidr_2.19.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) lipidr_2.19.0.tgz
macOS Binary (arm64) lipidr_2.19.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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