nGIA: A novel Greedy Incremental Alignment based algorithm for gene sequence clustering

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Zhen Ju, Huiling Zhang, Jintao Meng, Jingjing Zhang, Jianping Fan, Yi Pan, Weiguo Liu, Xuelei Li, Yanjie Wei

Published: 01 Jan 2022, Last Modified: 13 Nov 2024Future Gener. Comput. Syst. 2022EveryoneRevisionsBibTeXCC BY-SA 4.0
Abstract: Highlights•Combination of better filters and data packing method etc. improves the efficiency.•Serial version of nGIA on average runs faster than CD-HIT, Vsearch and Uclust.•nGIA software is programmed with oneAPI supporting both the GPU and CPU.•The strong scaling efficiency of nGIA is 31% with 32 threads.