fission

DOI: 10.18129/B9.bioc.fission    

This is the development version of fission; for the stable release version, see fission.

RangedSummarizedExperiment for time course RNA-Seq of fission yeast in response to stress, by Leong et al., Nat Commun 2014.

Bioconductor version: Development (3.8)

This package provides a RangedSummarizedExperiment object of read counts in genes for a time course RNA-Seq experiment of fission yeast (Schizosaccharomyces pombe) in response to oxidative stress (1M sorbitol treatment) at 0, 15, 30, 60, 120 and 180 mins. The samples are further divided between a wild-type group and a group with deletion of atf21. The read count matrix was prepared and provided by the author of the study: Leong HS, Dawson K, Wirth C, Li Y, Connolly Y, Smith DL, Wilkinson CR, Miller CJ. "A global non-coding RNA system modulates fission yeast protein levels in response to stress". Nat Commun 2014 May 23;5:3947. PMID: 24853205. GEO: GSE56761.

Author: Michael Love

Maintainer: Michael Love <michaelisaiahlove at gmail.com>

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

Installation

To install this package, start R and enter:

if (!requireNamespace("BiocManager", quietly=TRUE))
    install.packages("BiocManager")
BiocManager::install("fission", version = "devel")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("fission")

 

HTML R Script Fission yeast time course
PDF   Reference Manual

Details

biocViews ExperimentData, GEO, Genome, RNASeqData, Saccharomyces_cerevisiae_Data, SequencingData
Version 0.115.0
License LGPL
Depends R (>= 2.10), SummarizedExperiment
Imports
LinkingTo
Suggests knitr
SystemRequirements
Enhances
URL
Depends On Me rnaseqGene
Imports Me
Suggests Me
Build Report  

Package Archives

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

Source Package fission_0.115.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
Source Repository git clone https://git.bioconductor.org/packages/fission
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/fission
Package Short Url http://bioconductor.org/packages/fission/
Package Downloads Report Download Stats

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