CUDA performance in DNA analysis: Analysis of CUDA architecture performance in DNA analysis

Daniel Cadete; António Dos Anjos; Hamid Reza Shahbazkia; Richard Christen

CUDA performance in DNA analysis: Analysis of CUDA architecture performance in DNA analysis

Daniel Cadete^*, António Dos Anjos, Hamid Reza Shahbazkia, Richard Christen

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Adran Cyfrifiadureg

Allbwn ymchwil: Pennod mewn Llyfr/Adroddiad/Trafodion Cynhadledd › Trafodion Cynhadledd (Nid-Cyfnodolyn fathau)

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It is shown how Nvidia Cuda can contribute to the analysis of DNA data. Three approaches are described, one using CPU threads and the other two using Cuda. For both Cuda approaches, advantages and disadvantages related to the Cuda Architecture, are presented. It is shown that, in some cases, one of these two approaches is competitive with the approach using CPU threads, and the other approach may produce good results in a near future.

Iaith wreiddiol	Saesneg
Teitl	Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms
Cyhoeddwr	Science and Technology Publications
Tudalennau	253-257
Nifer y tudalennau	5
ISBN (Argraffiad)	9789898425362, 9898425369
Statws	Cyhoeddwyd - 2011
Digwyddiad	International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2011 - Rome, Yr Eidal Hyd: 26 Ion 2011 → 29 Ion 2011

Cynhadledd

Cynhadledd	International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2011
Gwlad/Tiriogaeth	Yr Eidal
Dinas	Rome
Cyfnod	26 Ion 2011 → 29 Ion 2011

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Dolen barhaus

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Link to publication in Scopus

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@inproceedings{0abfbe1c34b24d238770614713ec7fc1,

title = "CUDA performance in DNA analysis: Analysis of CUDA architecture performance in DNA analysis",

abstract = "It is shown how Nvidia Cuda can contribute to the analysis of DNA data. Three approaches are described, one using CPU threads and the other two using Cuda. For both Cuda approaches, advantages and disadvantages related to the Cuda Architecture, are presented. It is shown that, in some cases, one of these two approaches is competitive with the approach using CPU threads, and the other approach may produce good results in a near future.",

keywords = "CUDA, DNA analysis, Parallel computing",

author = "Daniel Cadete and {Dos Anjos}, Ant{\'o}nio and Shahbazkia, {Hamid Reza} and Richard Christen",

year = "2011",

language = "English",

isbn = "9789898425362",

pages = "253--257",

booktitle = "Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms",

publisher = "Science and Technology Publications",

address = "Portugal",

note = "International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2011 ; Conference date: 26-01-2011 Through 29-01-2011",

}

Cadete, D, Dos Anjos, A, Shahbazkia, HR & Christen, R 2011, CUDA performance in DNA analysis: Analysis of CUDA architecture performance in DNA analysis. yn Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms. Science and Technology Publications, tt. 253-257, International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2011, Rome, Yr Eidal, 26 Ion 2011.

CUDA performance in DNA analysis: Analysis of CUDA architecture performance in DNA analysis. / Cadete, Daniel; Dos Anjos, António; Shahbazkia, Hamid Reza et al.
Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms. Science and Technology Publications, 2011. t. 253-257.

Allbwn ymchwil: Pennod mewn Llyfr/Adroddiad/Trafodion Cynhadledd › Trafodion Cynhadledd (Nid-Cyfnodolyn fathau)

TY - GEN

T1 - CUDA performance in DNA analysis

T2 - International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2011

AU - Cadete, Daniel

AU - Dos Anjos, António

AU - Shahbazkia, Hamid Reza

AU - Christen, Richard

PY - 2011

Y1 - 2011

N2 - It is shown how Nvidia Cuda can contribute to the analysis of DNA data. Three approaches are described, one using CPU threads and the other two using Cuda. For both Cuda approaches, advantages and disadvantages related to the Cuda Architecture, are presented. It is shown that, in some cases, one of these two approaches is competitive with the approach using CPU threads, and the other approach may produce good results in a near future.

AB - It is shown how Nvidia Cuda can contribute to the analysis of DNA data. Three approaches are described, one using CPU threads and the other two using Cuda. For both Cuda approaches, advantages and disadvantages related to the Cuda Architecture, are presented. It is shown that, in some cases, one of these two approaches is competitive with the approach using CPU threads, and the other approach may produce good results in a near future.

KW - CUDA

KW - DNA analysis

KW - Parallel computing

UR - http://www.scopus.com/inward/record.url?scp=79960158669&partnerID=8YFLogxK

M3 - Conference Proceeding (Non-Journal item)

AN - SCOPUS:79960158669

SN - 9789898425362

SN - 9898425369

SP - 253

EP - 257

BT - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms

PB - Science and Technology Publications

Y2 - 26 January 2011 through 29 January 2011

ER -

CUDA performance in DNA analysis: Analysis of CUDA architecture performance in DNA analysis

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