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DNABarcodes

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This is the development version of DNABarcodes; for the stable release version, see DNABarcodes.

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


Bioconductor version: Development (3.19)

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>

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

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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")
DNABarcodes HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Preprocessing, Sequencing, Software
Version 1.33.1
In Bioconductor since BioC 3.2 (R-3.2) (8.5 years)
License GPL-2
Depends Matrix, parallel
Imports Rcpp (>= 0.11.2), BH
System Requirements
URL
See More
Suggests knitr, BiocStyle, rmarkdown
Linking To Rcpp, BH
Enhances
Depends On Me
Imports Me DNABarcodeCompatibility
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package DNABarcodes_1.33.1.tar.gz
Windows Binary DNABarcodes_1.33.1.zip
macOS Binary (x86_64)
macOS Binary (arm64)
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