DNABarcodes

DOI: 10.18129/B9.bioc.DNABarcodes    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see DNABarcodes.

A tool for creating and analysing DNA barcodes used in Next Generation Sequencing multiplexing experiments

Bioconductor version: 3.9

The package offers a function to create DNA barcode sets capable of correcting insertion, deletion, and substitution errors. Existing barcodes can be analysed regarding their minimal, maximal and average distances between barcodes. Finally, reads that start with a (possibly mutated) barcode can be demultiplexed, i.e., assigned to their original reference barcode.

Author: Tilo Buschmann <tilo.buschmann.ac at gmail.com>

Maintainer: Tilo Buschmann <tilo.buschmann.ac at gmail.com>

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("DNABarcodes")

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("DNABarcodes")

 

HTML	R Script	DNABarcodes
PDF		Reference Manual
Text		NEWS

Details

biocViews	Preprocessing, Sequencing, Software
Version	1.14.0
In Bioconductor since	BioC 3.2 (R-3.2) (4 years)
License	GPL-2
Depends	Matrix, parallel
Imports	Rcpp (>= 0.11.2), BH
LinkingTo	Rcpp, BH
Suggests	knitr, BiocStyle, rmarkdown
SystemRequirements
Enhances
URL
Depends On Me
Imports Me	DNABarcodeCompatibility
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	DNABarcodes_1.14.0.tar.gz
Windows Binary	DNABarcodes_1.14.0.zip
Mac OS X 10.11 (El Capitan)	DNABarcodes_1.14.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/DNABarcodes
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/DNABarcodes
Package Short Url	https://bioconductor.org/packages/DNABarcodes/
Package Downloads Report	Download Stats