- author = "William B. Langdon and Brian Yee Hong Lam and Justyna Petke and Mark Harman",
- title = "Improving {CUDA} {DNA} Analysis Software with Genetic Programming",
- booktitle = "GECCO '15: Proceedings of the 2015 Annual Conference on Genetic and Evolutionary Computation",
- year = "2015",
- editor = "Sara Silva and Anna I Esparcia-Alcazar and Manuel Lopez-Ibanez and Sanaz Mostaghim and Jon Timmis and Christine Zarges and Luis Correia and Terence Soule and Mario Giacobini and Ryan Urbanowicz and Youhei Akimoto and Tobias Glasmachers and Francisco {Fernandez de Vega} and Amy Hoover and Pedro Larranaga and Marta Soto and Carlos Cotta and Francisco B. Pereira and Julia Handl and Jan Koutnik and Antonio Gaspar-Cunha and Heike Trautmann and Jean-Baptiste Mouret and Sebastian Risi and Ernesto Costa and Oliver Schuetze and Krzysztof Krawiec and Alberto Moraglio and Julian F. Miller and Pawel Widera and Stefano Cagnoni and JJ Merelo and Emma Hart and Leonardo Trujillo and Marouane Kessentini and Gabriela Ochoa and Francisco Chicano and Carola Doerr",
- pages = "1063--1070",
- organisation = "SIGEVO",
- address = "Madrid",
- publisher = "ACM",
- publisher_address = "New York, NY, USA",
- keywords = "genetic algorithms, genetic programming, genetic improvement, SBSE, Artificial Intelligence, Automatic Programming, Testing, Performance, Speedup, BarraCUDA, DNA sequence mapping, software, NVIDIA Tesla K40, CUDA, C++, GPU, Burrows-Wheeler algorithm, BWA, parallel computing, SIMD, phenotypic tabu search, genotypic tabu search, GPGPU, Bioinformatics, Software engineering, GP, GI, GGGP, Grow and Graft Genetic programming, Man and Machine Collaborative Development, Tabu, configuration paramters, BNF grammar",
- month = "11-15 " # jul,
- isbn13 = "978-1-4503-3472-3",
-
URL = "
http://www.cs.ucl.ac.uk/staff/W.Langdon/ftp/papers/Langdon_2015_GECCO.pdf",
-
URL = "
http://doi.acm.org/10.1145/2739480.2754652",
-
DOI = "
doi:10.1145/2739480.2754652",
-
code_url = "http://www.cs.ucl.ac.uk/staff/W.Langdon/ftp/gp-code/barracuda_gp.tar.gz",
-
code_url = "http://seqbarracuda.sourceforge.net/",
- abstract = "We genetically improve BarraCUDA using a BNF grammar incorporating C scoping rules with GP. Barracuda maps next generation DNA sequences to the human genome using the Burrows-Wheeler algorithm (BWA) on nVidia Tesla parallel graphics hardware (GPUs). GI using phenotypic tabu search with manually grown code can graft new features giving more than 100 fold speed up on a performance critical kernel without loss of accuracy.",
-
notes = "See also \cite{Langdon:2017:BDM}
\cite{Langdon:RN1503}. Cited by
\cite{Langdon:2016:GPEM}
Slides: http://www.cs.ucl.ac.uk/staff/W.Langdon/gecco2015/langdon_2015_gecco_slides.pdf
Code http://www.cs.ucl.ac.uk/staff/W.Langdon/ftp/gp-code/barracuda_gp.tar.gz Incorporated code as barracuda release 0.7.105 can be downloaded from SourceForge: http://seqbarracuda.sourceforge.net/
cited by Karel Brinda PhD thesis \cite{brinda:tel-01484198}, also \cite{lavenier:hal-01399997}.
Also known as \cite{2754652} GECCO-2015 A joint meeting of the twenty fourth international conference on genetic algorithms (ICGA-2015) and the twentith annual genetic programming conference (GP-2015)",
