recipe bioconductor-lobstahs

Lipid and Oxylipin Biomarker Screening through Adduct Hierarchy Sequences

Homepage

https://bioconductor.org/packages/3.11/bioc/html/LOBSTAHS.html

License

GPL (>= 3) + file LICENSE

Recipe

/bioconductor-lobstahs/meta.yaml

Links

biotools: lobstahs

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.

package bioconductor-lobstahs

(downloads) docker_bioconductor-lobstahs

Versions

1.14.0-01.12.0-01.10.0-11.8.1-01.4.0-0

Depends
Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-lobstahs

and update with:

conda update bioconductor-lobstahs

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-lobstahs:<tag>

(see bioconductor-lobstahs/tags for valid values for <tag>)