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Bioconductor - NanoporeRNASeq

NanoporeRNASeq

This is the released version of NanoporeRNASeq; for the devel version, see NanoporeRNASeq.

Nanopore RNA-Seq Example data

Bioconductor version: Release (3.21)

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 (from within R, enter citation("NanoporeRNASeq")): Installation

To install this package, start R (version "4.5") 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")

Details 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.

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