Arioc: high-throughput read alignment with GPU-accelerated exploration of the seed-and-extend search space-Reference-Cited by-同舟云学术

Arioc: high-throughput read alignment with GPU-accelerated exploration of the seed-and-extend search space

Author:

Wilton Richard¹,Budavari Tamas²,Langmead Ben³⁴,Wheelan Sarah J.⁵⁶,Salzberg Steven L.³⁷⁴,Szalay Alexander S.¹³

Affiliation:

1. Department of Physics and Astronomy, Johns Hopkins University, Baltimore, MD, USA

2. Department of Applied Mathematics and Statistics, Johns Hopkins University, USA

3. Department of Computer Science, Johns Hopkins University, USA

4. Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University, USA

5. Department of Oncology, Johns Hopkins University School of Medicine, USA

6. Center for Computational Genomics, Johns Hopkins University, USA

7. Department of Biomedical Engineering, Johns Hopkins University, USA

Publisher

PeerJ

Subject

General Agricultural and Biological Sciences,General Biochemistry, Genetics and Molecular Biology,General Medicine,General Neuroscience

Link

Reference25 articles.

1. Basic local alignment search tool;Altschul;Journal of Molecular Biology,1990

2. Considerations when evaluating microprocessor platforms;Anderson,2011

3. MurmurHash3. Available at https://code.google.com/p/smhasher/

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