DOI: 10.18129/B9.bioc.DNABarcodeCompatibility    

A Tool for Optimizing Combinations of DNA Barcodes Used in Multiplexed Experiments on Next Generation Sequencing Platforms

Bioconductor version: Release (3.12)

The package allows one to obtain optimised combinations of DNA barcodes to be used for multiplex sequencing. In each barcode combination, barcodes are pooled with respect to Illumina chemistry constraints. Combinations can be filtered to keep those that are robust against substitution and insertion/deletion errors thereby facilitating the demultiplexing step. In addition, the package provides an optimiser function to further favor the selection of barcode combinations with least heterogeneity in barcode usage.

Author: Céline Trébeau [cre] , Jacques Boutet de Monvel [aut] , Fabienne Wong Jun Tai [ctb], Raphaël Etournay [aut]

Maintainer: Céline Trébeau <ctrebeau at pasteur.fr>

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


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HTML R Script Introduction to DNABarcodeCompatibility
PDF   Reference Manual
Text   NEWS


biocViews Preprocessing, Sequencing, Software
Version 1.6.0
In Bioconductor since BioC 3.9 (R-3.6) (1.5 years)
License file LICENSE
Depends R (>= 3.6.0)
Imports dplyr, tidyr, numbers, purrr, stringr, DNABarcodes, stats, utils, methods
Suggests knitr, rmarkdown, BiocStyle, testthat
BugReports https://github.com/comoto-pasteur-fr/DNABarcodeCompatibility/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
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Source Package DNABarcodeCompatibility_1.6.0.tar.gz
Windows Binary DNABarcodeCompatibility_1.6.0.zip
macOS 10.13 (High Sierra) DNABarcodeCompatibility_1.6.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/DNABarcodeCompatibility
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/DNABarcodeCompatibility
Package Short Url https://bioconductor.org/packages/DNABarcodeCompatibility/
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