To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("airway")
In most cases, you don't need to download the package archive at all.
airway
|
This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see airway.
RangedSummarizedExperiment for RNA-Seq in airway smooth muscle cells, by Himes et al PLoS One 2014
Bioconductor version: 3.4
This package provides a RangedSummarizedExperiment object of read counts in genes for an RNA-Seq experiment on four human airway smooth muscle cell lines treated with dexamethasone. Details on the gene model and read counting procedure are provided in the package vignette. The citation for the experiment is: Himes BE, Jiang X, Wagner P, Hu R, Wang Q, Klanderman B, Whitaker RM, Duan Q, Lasky-Su J, Nikolos C, Jester W, Johnson M, Panettieri R Jr, Tantisira KG, Weiss ST, Lu Q. 'RNA-Seq Transcriptome Profiling Identifies CRISPLD2 as a Glucocorticoid Responsive Gene that Modulates Cytokine Function in Airway Smooth Muscle Cells.' PLoS One. 2014 Jun 13;9(6):e99625. PMID: 24926665. GEO: GSE52778.
Author: Michael Love
Maintainer: Michael Love <michaelisaiahlove at gmail.com>
Citation (from within R,
enter citation("airway")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("airway")
Documentation
| HTML | R Script | Airway smooth muscle cells |
| Reference Manual |
Details
| biocViews | ExperimentData, GEO, RNASeqData, SequencingData |
| Version | 0.108.0 |
| License | LGPL |
| Depends | R (>= 2.10), SummarizedExperiment |
| Imports | |
| LinkingTo | |
| Suggests | knitr, GEOquery |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | biobroom, DESeq2, EnrichmentBrowser, IHW, IHWpaper, pcaExplorer, SummarizedExperiment |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | airway_0.108.0.tar.gz |
| Windows Binary | |
| Mac OS X 10.9 (Mavericks) | |
| Subversion source | (username/password: readonly) |
| Package Short Url | http://bioconductor.org/packages/airway/ |
| Package Downloads Report | Download Stats |
Documentation »
Bioconductor
- Package vignettes and manuals.
- Workflows for learning and use.
- Course and conference material.
- Videos.
- Community resources and tutorials.
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations:
- Support site - for questions about Bioconductor packages
- Bioc-devel mailing list - for package developers
