single

DOI: 10.18129/B9.bioc.single  

Accurate consensus sequence from nanopore reads of a gene library

Bioconductor version: Release (3.17)

Accurate consensus sequence from nanopore reads of a DNA gene library. SINGLe corrects for systematic errors in nanopore sequencing reads of gene libraries and it retrieves true consensus sequences of variants identified by a barcode, needing only a few reads per variant. More information in preprint doi: https://doi.org/10.1101/2020.03.25.007146.

Author: Rocio Espada [aut, cre]

Maintainer: Rocio Espada <rocio.espada at espci.fr>

Installation

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

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

BiocManager::install("single")

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("single")

 

HTML	R Script	single
HTML	R Script	single_fullcode
PDF		Reference Manual
Text		LICENSE

Details

biocViews	Sequencing, Software
Version	1.4.0
In Bioconductor since	BioC 3.15 (R-4.2) (1.5 years)
License	MIT + file LICENSE
Depends	R (>= 4.0)
Imports	Biostrings, BiocGenerics, dplyr, GenomicAlignments, IRanges, methods, reshape2, rlang, Rsamtools, stats, stringr, tidyr, utils
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown
SystemRequirements
Enhances
URL
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	single_1.4.0.tar.gz
Windows Binary	single_1.4.0.zip
macOS Binary (x86_64)	single_1.4.0.tgz
macOS Binary (arm64)	single_1.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/single
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/single
Bioc Package Browser	https://code.bioconductor.org/browse/single/
Package Short Url	https://bioconductor.org/packages/single/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.17	Source Archive