source("http://bioconductor.org/biocLite.R")
biocLite("pasilla")

pasilla

Data package with per-exon and per-gene read counts of RNA-seq samples of Pasilla knock-down by Brooks et al., Genome Research 2011.

Bioconductor version: 2.13

This package provides per-exon and per-gene read counts computed for selected genes from RNA-seq data that were presented in the article "Conservation of an RNA regulatory map between Drosophila and mammals" by Brooks AN, Yang L, Duff MO, Hansen KD, Park JW, Dudoit S, Brenner SE, Graveley BR, Genome Res. 2011 Feb;21(2):193-202, Epub 2010 Oct 4, PMID: 20921232. The experiment studied the effect of RNAi knockdown of Pasilla, the Drosophila melanogaster ortholog of mammalian NOVA1 and NOVA2, on the transcriptome. The package vignette describes how the data provided here were derived from the RNA-Seq read sequence data that is provided by NCBI Gene Expression Omnibus under accession numbers GSM461176 to GSM461181

Author: Wolfgang Huber, Alejandro Reyes

Maintainer: Alejandro Reyes <reyes at embl.de>

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("pasilla")

Documentation

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

browseVignettes("pasilla")

 

PDF	R Script	Data preprocessing and creation of the data objects pasillaGenes and pasillaExons
PDF		Reference Manual

Details

biocViews	ExperimentData, RNAseqData
Version	0.2.19
License	LGPL
Depends
Imports
Suggests	locfit, edgeR, xtable, DEXSeq, DESeq
System Requirements
URL
Depends On Me
Imports Me
Suggests Me	BADER, DESeq, DESeq2, DEXSeq, genefilter, GenomicRanges, pasillaBamSubset

Package Archives

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

Package Source	pasilla_0.2.19.tar.gz
Windows Binary	pasilla_0.2.19.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	pasilla_0.2.19.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats