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Lipid and Oxylipin Biomarker Screening through Adduct Hierarchy Sequences

Bioconductor version: Release (3.19)

LOBSTAHS is a multifunction package for screening, annotation, and putative identification of mass spectral features in large, HPLC-MS lipid datasets. In silico data for a wide range of lipids, oxidized lipids, and oxylipins can be generated from user-supplied structural criteria with a database generation function. LOBSTAHS then applies these databases to assign putative compound identities to features in any high-mass accuracy dataset that has been processed using xcms and CAMERA. Users can then apply a series of orthogonal screening criteria based on adduct ion formation patterns, chromatographic retention time, and other properties, to evaluate and assign confidence scores to this list of preliminary assignments. During the screening routine, LOBSTAHS rejects assignments that do not meet the specified criteria, identifies potential isomers and isobars, and assigns a variety of annotation codes to assist the user in evaluating the accuracy of each assignment.

Author: James Collins [aut, cre], Helen Fredricks [aut], Bethanie Edwards [aut], Henry Holm [aut], Benjamin Van Mooy [aut], Daniel Lowenstein [aut]

Maintainer: Henry Holm <hholm at>, Daniel Lowenstein <dlowenstein at>, James Collins <james.r.collins at>

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


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

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


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:

Discovery, Identification, and Screening of Lipids and Oxylipins in HPLC-MS Datasets Using LOBSTAHS HTML R Script
Reference Manual PDF


biocViews DataImport, ImmunoOncology, Lipidomics, MassSpectrometry, Metabolomics, Software
Version 1.30.0
In Bioconductor since BioC 3.4 (R-3.3) (7.5 years)
License GPL (>= 3) + file LICENSE
Depends R (>= 3.4), xcms, CAMERA, methods
Imports utils
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Suggests PtH2O2lipids, knitr, rmarkdown
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Depends On Me PtH2O2lipids
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Follow Installation instructions to use this package in your R session.

Source Package LOBSTAHS_1.30.0.tar.gz
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macOS Binary (x86_64) LOBSTAHS_1.30.0.tgz
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