single

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see single.

Accurate consensus sequence from nanopore reads of a gene library


Bioconductor version: 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>

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 1.4.0
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
System Requirements
URL
See More
Suggests BiocStyle, knitr, rmarkdown
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report 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