Fast Parallel Markov Clustering in Bioinformatics Using Massively Parallel Computing on GPU with CUDA and ELLPACK-R Sparse Format

Markov clustering (MCL) is becoming a key algorithm within bioinformatics for determining clusters in networks. However, with increasing vast amount of data on biological networks, performance and scalability issues are becoming a critical limiting factor in applications. Meanwhile, GPU computing, w...

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Bibliographic Details
Published in:	IEEE/ACM transactions on computational biology and bioinformatics Vol. 9; no. 3; pp. 679 - 692
Main Authors:	Bustamam, A., Burrage, K., Hamilton, N. A.
Format:	Journal Article
Language:	English
Published:	United States IEEE 01.05.2012 The Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subjects:	Algorithms Bioinformatics Cluster Analysis Clustering Computation Computational Biology - methods Computer Graphics Computer Simulation CUDA ELLPACK-R sparse format Format GPU computing Graphics processing unit graphs and networks Instruction sets Markov Chains Markov clustering Markov processes Multicore processing Networks Oligonucleotide Array Sequence Analysis Parallel processing parallelism and concurrency performance evaluation PPI networks Proteins scalable parallel programming Studies
ISSN:	1545-5963, 1557-9964, 1557-9964
Online Access:	Get full text
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