Package: NanoporeRNASeq 1.23.1

Ying Chen

NanoporeRNASeq: Nanopore RNA-Seq Example data

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.

Authors:Jonathan Goeke [aut], Ying Chen [cre], Yuk Kei Wan [aut]

NanoporeRNASeq_1.23.1.tar.gz
NanoporeRNASeq_1.23.1.tar.gz(r-4.7-any)NanoporeRNASeq_1.23.1.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
NanoporeRNASeq/json (API)

# Install 'NanoporeRNASeq' in R:

install.packages('NanoporeRNASeq', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/goekelab/nanoporernaseq/issues

Datasets:

HsChr22BambuAnnotation - BambuAnnotation of the first half of Human Sapiens Chr22
SGNexSamples - SG-Nex samples from Nanopore RNA-Seq

On BioConductor:NanoporeRNASeq-1.23.1(data/experiment 3.24)NanoporeRNASeq-1.22.0(data/experiment 3.23)

experimenthub experimentdata rnaseqdata genome sequencingdata bioconductor long-reads nanopore rna-seq sg-nex datapkg

5.26 score 9 stars 7 scripts 0 exports 57 dependencies

Last updated from:5994e53262. Checks:1 WARNING, 2 NOTE, 1 OK. Indexed: yes.

This is a data package. Data packages may be large and do not get checked across all platforms.

Target	Result	Time
bioc-checks	WARNING	191
linux-devel	NOTE	305
source / vignettes	OK	391
linux-release	NOTE	294

Exports:

Dependencies:AnnotationDbi AnnotationHub askpass Biobase BiocBaseUtils BiocFileCache BiocGenerics BiocManager BiocVersion Biostrings bit bit64 blob cachem cli cpp11 crayon curl DBI dbplyr dplyr ExperimentHub fastmap filelock generics glue httr httr2 IRanges jsonlite KEGGREST lifecycle magrittr memoise mime openssl pillar pkgconfig png purrr R6 rappdirs rlang RSQLite S4Vectors Seqinfo stringi stringr sys tibble tidyr tidyselect utf8 vctrs withr XVector yaml

An introduction to the bambu package using NanoporeRNASeq data

Rendered fromNanoporeRNASeq.Rmdusingknitr::rmarkdown

Last update: 2026-10-01
Started: 2020-05-22

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
BambuAnnotation of the first half of Human Sapiens Chr22	HsChr22BambuAnnotation
NanoporeRNASeq package with long-read RNA sequencing data	NanoporeRNASeq
SG-Nex samples from Nanopore RNA-Seq	SGNexSamples