airway
This package is for version 3.15 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: 3.15
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("airway")):
Installation
To install this package, start R (version "4.2") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("airway")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("airway")| Airway smooth muscle cells | HTML | R Script |
| Reference Manual |
Details
| biocViews | ExperimentData, GEO, RNASeqData, SequencingData |
| Version | 1.16.0 |
| License | LGPL |
| Depends | R (>= 3.5.0), SummarizedExperiment |
| Imports | |
| System Requirements | |
| URL |
See More
| Suggests | knitr, GEOquery, markdown |
| Linking To | |
| Enhances | |
| Depends On Me | rnaseqGene |
| Imports Me | consensusDE |
| Suggests Me | apeglm, awst, biobroom, BioCor, BiocSet, CeTF, DelayedArray, DESeq2, EnhancedVolcano, EnrichmentBrowser, ExperimentSubset, ideal, IHW, IHWpaper, InteractiveComplexHeatmap, iSEEu, OPWeight, pathwayPCA, pcaExplorer, PCAtools, progeny, RegParallel, runibic, SummarizedExperiment, TTMap, weitrix |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | airway_1.16.0.tar.gz |
| Windows Binary | |
| macOS Binary (x86_64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/airway |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/airway |
| Package Short Url | https://bioconductor.org/packages/airway/ |
| Package Downloads Report | Download Stats |