PtH2O2lipids

DOI: 10.18129/B9.bioc.PtH2O2lipids    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see PtH2O2lipids.

P. tricornutum HPLC-ESI-MS Lipid Data from van Creveld et al. (2015)

Bioconductor version: 3.9

Annotated HPLC-ESI-MS lipid data in positive ionization mode from an experiment in which cultures of the marine diatom Phaeodactylum tricornutum were treated with various concentrations of hydrogen peroxide (H2O2) to induce oxidative stress. The experiment is described in Graff van Creveld, et al., 2015, "Early perturbation in mitochondria redox homeostasis in response to environmental stress predicts cell fate in diatoms," ISME Journal 9:385-395. PtH2O2lipids consists of two objects: A CAMERA xsAnnotate object (ptH2O2lipids$xsAnnotate) and LOBSTAHS LOBSet object (ptH2O2lipids$xsAnnotate$LOBSet). The LOBSet includes putative compound assignments from the default LOBSTAHS database. Isomer annotation is recorded in three other LOBSet slots.

Author: Shiri Graff van Creveld [aut], Shilo Rosenwasser [aut], Daniella Schatz [aut], Ilan Koren [aut], Assaf Vardi [aut], James Collins [cre]

Maintainer: James Collins <james.r.collins at aya.yale.edu>

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("PtH2O2lipids")

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

Documentation

PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	CellCulture, ExperimentData, MassSpectrometryData, Phaeodactylum_tricornutum_data, ReproducibleResearch
Version	1.10.0
License	MIT + file LICENSE
Depends	R (>= 3.3), xcms, CAMERA, LOBSTAHS, methods, utils
Imports
LinkingTo
Suggests	gplots, RColorBrewer, cluster, vegan, clustsig
SystemRequirements
Enhances
URL	http://dx.doi.org/10.1038/ismej.2014.136 https://github.com/vanmooylipidomics/PtH2O2lipids http://www.whoi.edu/page.do?pid=133616&tid=282&cid=192529
BugReports	https://github.com/vanmooylipidomics/PtH2O2lipids/issues/new
Depends On Me
Imports Me
Suggests Me	LOBSTAHS
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	PtH2O2lipids_1.10.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
Source Repository	git clone https://git.bioconductor.org/packages/PtH2O2lipids
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/PtH2O2lipids
Package Short Url	https://bioconductor.org/packages/PtH2O2lipids/
Package Downloads Report	Download Stats