single

DOI: 10.18129/B9.bioc.single  

Accurate consensus sequence from nanopore reads of a gene library

Bioconductor version: Release (3.16)

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 "4.2") 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")

 

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Details

biocViews Sequencing, Software
Version 1.2.0
In Bioconductor since BioC 3.15 (R-4.2) (1 year)
License MIT + file LICENSE
Depends R (>= 4.1)
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
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Package Archives

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

Source Package single_1.2.0.tar.gz
Windows Binary single_1.2.0.zip (64-bit only)
macOS Binary (x86_64) single_1.2.0.tgz
macOS Binary (arm64) single_1.2.0.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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