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>

Citation (from within R, enter citation("PtH2O2lipids")):

Installation

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


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

BiocManager::install("PtH2O2lipids")

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

Documentation


Reference Manual	PDF
NEWS	Text
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

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
System Requirements
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
Bug Reports	https://github.com/vanmooylipidomics/PtH2O2lipids/issues/new

Suggests	gplots, RColorBrewer, cluster, vegan, clustsig
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me	LOBSTAHS
Links To Me
Build Report	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