CUDAMPF++: A Proactive Resource Exhaustion Scheme for Accelerating Homologous Sequence Search on CUDA-enabled GPU
Hanyu Jiang,
Narayan Ganesan,
Yu-Dong Yao
Abstract:Genomic sequence alignment is an important research topic in bioinformatics and continues to attract significant efforts. As genomic data grow exponentially, however, most of alignment methods face challenges due to their huge computational costs. HMMER, a suite of bioinformatics tools, is widely used for the analysis of homologous protein and nucleotide sequences with high sensitivity, based on profile hidden Markov models (HMMs). Its latest version, HMMER3, introdues a heuristic pipeline to accelerate the al… Show more
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