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single

Accurate consensus sequence from nanopore reads of a gene library


Bioconductor version: Release (3.18)

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>

Citation (from within R, enter citation("single")):

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

Details

biocViews Sequencing, Software
Version 1.6.0
In Bioconductor since BioC 3.15 (R-4.2) (2 years)
License MIT + file LICENSE
Depends R (>= 4.0)
Imports Biostrings, BiocGenerics, dplyr, GenomicAlignments, IRanges, methods, reshape2, rlang, Rsamtools, stats, stringr, tidyr, utils
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Suggests BiocStyle, knitr, rmarkdown
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package single_1.6.0.tar.gz
Windows Binary single_1.6.0.zip
macOS Binary (x86_64) single_1.6.0.tgz
macOS Binary (arm64) single_1.6.0.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/
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