Package: lipidr
Title: Data Mining and Analysis of Lipidomics Datasets
Version: 2.27.0
Authors@R: c(
    person(
        "Ahmed", "Mohamed", 
        email = "mohamed@kuicr.kyoto-u.ac.jp", role = "cre",
        comment = c(ORCID = "0000-0001-6507-5300")
    ),
    person(
        "Ahmed", "Mohamed", 
        email = "ahmed.mohamed@qimrberghofer.edu.au", role = "aut"
    ),
    person(
        "Jeffrey", "Molendijk", 
        email = "Jeffrey.Molendijk@qimrberghofer.edu.au", role = "aut"
    ))
Description: 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.
Depends: R (>= 3.6.0), SummarizedExperiment
Imports: methods, stats, utils, data.table, S4Vectors, rlang, dplyr,
        tidyr, forcats, ggplot2, limma, fgsea, ropls, imputeLCMD,
        magrittr
License: MIT + file LICENSE
Suggests: knitr, rmarkdown, BiocStyle, ggrepel, plotly, spelling,
        testthat
VignetteBuilder: knitr
biocViews: Lipidomics, MassSpectrometry, Normalization, QualityControl,
        Visualization
Language: en-US
RoxygenNote: 7.2.3
Roxygen: list(markdown = TRUE)
URL: https://github.com/ahmohamed/lipidr
BugReports: https://github.com/ahmohamed/lipidr/issues/
Config/pak/sysreqs: cmake make libicu-dev libuv1-dev libssl-dev
        zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:50:06 UTC
RemoteUrl: https://github.com/bioc/lipidr
RemoteRef: HEAD
RemoteSha: f3726e3a9085073b369e60e9c0bcde161b0409b7
NeedsCompilation: no
Packaged: 2026-07-04 15:00:45 UTC; root
Author: Ahmed Mohamed [cre] (ORCID: <https://orcid.org/0000-0001-6507-5300>),
  Ahmed Mohamed [aut],
  Jeffrey Molendijk [aut]
Maintainer: Ahmed Mohamed <mohamed@kuicr.kyoto-u.ac.jp>