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DNABarcodes

DNABarcodes

DNABarcodes is a tool for creating DNA barcodes for the purpose of error correction. The DNABarcodes algorithm can analyze existing barcodes by determining their distances.

Topic

Sequencing

Details

  • Operation: Community profiling
  • Software interface: Command-line user interface; Library
  • Language: R
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: GNU GPL v2
  • Cost: Free
  • Version name: 1.14.0
  • Maturity: Mature
  • Credit: the European Commission project EuroSyStem, the RIBOLUTION project of Fraunhofer-Zukunftsstiftung.
  • Contact: Tilo Buschmann tilo.buschmann.ac _at_ gmail.com
  • Collection: BioConductor

Publications

Buschmann T "DNABarcodes: an R package for the systematic construction of DNA sample tags." Bioinformatics. 2017 Mar 15;33(6):920-922. https://doi.org/10.1093/bioinformatics/btw759
PMID: 28052927


Buschmann T, Bystrykh LV "Levenshtein error-correcting barcodes for multiplexed DNA sequencing." BMC Bioinformatics. 2013 Sep 11;14:272. https://doi.org/10.1186/1471-2105-14-272
PMID: 24021088
PMCID: PMC3853030


Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J1, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M "Orchestrating high-throughput genomic analysis with Bioconductor." Nat Methods. 2015 Feb;12(2):115-21. https://doi.org/10.1038/nmeth.3252
PMID: 25633503
PMCID: PMC4509590


Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JY, Zhang J. "Bioconductor: open software development for computational biology and bioinformatics." Genome Biol. 2004;5(10):R80. Epub 2004 Sep 15. https://doi.org/10.1186/gb-2004-5-10-r80
PMID: 15461798
PMCID: PMC545600


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