gDNAinRNAseqData
This package is for version 3.20 of Bioconductor; for the stable, up-to-date release version, see gDNAinRNAseqData.
RNA-seq data with different levels of gDNA contamination
Bioconductor version: 3.20
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("gDNAinRNAseqData")):
Installation
To install this package, start R (version "4.4") 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")| RNA-seq data with different levels of gDNA contamination | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ExperimentData, ExperimentHub, ExpressionData, Homo_sapiens_Data, RNASeqData, SequencingData |
| Version | 1.6.0 |
| License | Artistic-2.0 |
| Depends | R (>= 4.3) |
| Imports | RCurl, XML, ExperimentHub, BiocGenerics, Rsamtools |
| System Requirements | |
| URL | https://github.com/functionalgenomics/gDNAinRNAseqData |
| Bug Reports | https://github.com/functionalgenomics/gDNAinRNAseqData |
See More
| Suggests | BiocStyle, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | gDNAx |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | gDNAinRNAseqData_1.6.0.tar.gz |
| Windows Binary (x86_64) | |
| 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 |