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Comparative Study
. 2015 Jan;12(1):59-60.
doi: 10.1038/nmeth.3176. Epub 2014 Nov 17.

Fast and sensitive protein alignment using DIAMOND

Benjamin Buchfink  1 , Chao Xie  2 , Daniel H Huson  3
Affiliations
Comparative Study

Fast and sensitive protein alignment using DIAMOND

Benjamin Buchfink et al. Nat Methods. 2015 Jan.

Abstract

The alignment of sequencing reads against a protein reference database is a major computational bottleneck in metagenomics and data-intensive evolutionary projects. Although recent tools offer improved performance over the gold standard BLASTX, they exhibit only a modest speedup or low sensitivity. We introduce DIAMOND, an open-source algorithm based on double indexing that is 20,000 times faster than BLASTX on short reads and has a similar degree of sensitivity.

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References

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