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gDNAinRNAseqData

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

RNA-seq data with different levels of gDNA contamination

Bioconductor version: Development (3.18)

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>

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

Installation

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

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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

Details

biocViews ExperimentData, ExperimentHub, ExpressionData, Homo_sapiens_Data, RNASeqData, SequencingData
Version 1.1.0
License Artistic-2.0
Depends R (>= 4.3)
Imports RCurl, XML, ExperimentHub, BiocGenerics, Rsamtools
Linking To
Suggests BiocStyle, knitr, rmarkdown
System Requirements
Enhances
URL https://github.com/functionalgenomics/gDNAinRNAseqData
Bug Reports https://github.com/functionalgenomics/gDNAinRNAseqData
See More
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_1.1.0.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/
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