COMER2: GPU-accelerated sensitive and specific homology searches.
other · Level V
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- Record sourced from PubMed, PMID 32167522.
- Also identified by DOI 10.1093/bioinformatics/btaa185 and PMC identifier 7267824.
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Abstract
Searching for homology in the vast amount of sequence data has a particular emphasis on its speed. We present a completely rewritten version of the sensitive homology search method COMER based on alignment of protein sequence profiles, which is capable of searching big databases even on a lightweight laptop. By harnessing the power of CUDA-enabled graphics processing units, it is up to 20 times faster than HHsearch, a state-of-the-art method using vectorized instructions on modern CPUs. COMER2 is cross-platform open-source software available at https://sourceforge.net/projects/comer2 and https://github.com/minmarg/comer2. It can be easily installed from source code or using stand-alone installers. mindaugas.margelevicius@bti.vu.lt. Supplementary data are available at Bioinformatics online.
Medical subject headings
- Software