Which is faster: Bowtie2GP $>$ Bowtie $>$ Bowtie2 $>$ BWA

Created by W.Langdon from gp-bibliography.bib Revision:1.8120

@InProceedings{Langdon:2013:GECCOlb,

• author = "W. B. Langdon",
• title = "Which is faster: {Bowtie2GP} $>$ {Bowtie} $>$ {Bowtie2} $>$ {BWA}",
• booktitle = "GECCO 2013 Late breaking abstracts workshop",
• year = "2013",
• editor = "Francisco Luna",
• keywords = "genetic algorithms, genetic programming, automatic software re-engineering, SBSE, double-ended DNA sequence, Solexa nextgen NGS, sequence query, Smith-Waterman, Bowtie2GP, fuzzy string matching, Homo sapiens genome reference consortium GRCh37.p5 h_sapiens_37.5_asm, IP29",
• pages = "1741--1742",
• month = "6-10 " # jul,
• organisation = "SIGEVO",
• organisation = "SIGEVO",
• address = "Amsterdam, The Netherlands",
• URL = "http://www.cs.ucl.ac.uk/staff/W.Langdon/ftp/papers/Langdon_2013_GECCOlb.pdf",
• DOI = "doi:10.1145/2464576.2480772",
• publisher = "ACM",
• publisher_address = "New York, NY, USA",
• isbn13 = "978-1-4503-1964-5",
• abstract = "We have recently used genetic programming to automatically generate an improved version of Langmead's DNA read alignment tool Bowtie2 [RN/12/09, Sect.\ 5.3]. We find it runs more than four times faster than the Bioinformatics sequencing tool (BWA) currently used with short next generation paired end DNA sequences by the Cancer Institute, takes less memory and yet finds similar matches in the human genome.",
• notes = "Based on \cite{Langdon:RN1303} http://arxiv.org/abs/1301.5187 See also \cite{Langdon:2013:ieeeTEC} \cite{Langdon:RN1209} Also known as \cite{Langdon:2013:GECCOcompa} \cite{2480772} Distributed at GECCO-2013.",

}

Genetic Programming entries for William B Langdon

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