NanoporeRNASeq
This package is for version 3.18 of Bioconductor; for the stable, up-to-date release version, see NanoporeRNASeq.
Nanopore RNA-Seq Example data
Bioconductor version: 3.18
The NanoporeRNASeq package contains long read RNA-Seq data generated using Oxford Nanopore Sequencing. The data consists of 6 samples from two human cell lines (K562 and MCF7) that were generated by the SG-NEx project. Each of these cell lines has three replicates, with 1 direct RNA sequencing data and 2 cDNA sequencing data. Reads are aligned to chromosome 22 (Grch38) and stored as bam files. The original data is from the SG-NEx project.
Author: Jonathan Goeke [aut], Ying Chen [cre], Yuk Kei Wan [aut]
Maintainer: Ying Chen <chen_ying at gis.a-star.edu.sg>
citation("NanoporeRNASeq")
):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("NanoporeRNASeq")
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("NanoporeRNASeq")
NanoporeRNASeq | HTML | R Script |
Reference Manual | ||
NEWS | Text | |
LICENSE | Text |
Details
biocViews | ExperimentData, ExperimentHub, Genome, RNASeqData, SequencingData |
Version | 1.12.0 |
License | GPL-3 + file LICENSE |
Depends | R (>= 4.0.0), ExperimentHub(>= 1.15.3) |
Imports | |
System Requirements | |
URL | https://github.com/GoekeLab/NanoporeRNASeq |
See More
Suggests | knitr, bambu, ggbio, BSgenome.Hsapiens.NCBI.GRCh38, circlize, ComplexHeatmap, apeglm, rlang, rmarkdown, GenomicAlignments, Rsamtools |
Linking To | |
Enhances | parallel |
Depends On Me | |
Imports Me | |
Suggests Me | bambu |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | NanoporeRNASeq_1.12.0.tar.gz |
Windows Binary | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/NanoporeRNASeq |
Source Repository (Developer Access) | git clone [email protected]:packages/NanoporeRNASeq |
Package Short Url | https://bioconductor.org/packages/NanoporeRNASeq/ |
Package Downloads Report | Download Stats |