gDNAinRNAseqData

DOI: 10.18129/B9.bioc.gDNAinRNAseqData  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see gDNAinRNAseqData.

RNA-seq data with different levels of gDNA contamination

Bioconductor version: 3.17

Provides access to BAM files generated from RNA-seq data produced with different levels of gDNA contamination. It currently allows one to download a subset of the data published by Li et al., BMC Genomics, 23:554, 2022. This subset of data is formed by BAM files with about 100,000 alignments with three different levels of gDNA contamination.

Author: Robert Castelo [aut, cre]

Maintainer: Robert Castelo <robert.castelo at upf.edu>

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("gDNAinRNAseqData")

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("gDNAinRNAseqData")

 

HTML	R Script	RNA-seq data with different levels of gDNA contamination
PDF		Reference Manual
Text		NEWS

Details

biocViews	ExperimentData, ExperimentHub, ExpressionData, Homo_sapiens_Data, RNASeqData, SequencingData
Version	1.0.0
License	Artistic-2.0
Depends	R (>= 4.3)
Imports	RCurl, XML, ExperimentHub, BiocGenerics, Rsamtools
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown
SystemRequirements
Enhances
URL	https://github.com/functionalgenomics/gDNAinRNAseqData
BugReports	https://github.com/functionalgenomics/gDNAinRNAseqData
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	gDNAinRNAseqData_1.0.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/gDNAinRNAseqData
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/gDNAinRNAseqData
Package Short Url	https://bioconductor.org/packages/gDNAinRNAseqData/
Package Downloads Report	Download Stats