SEED is a software for clustering large sets of Next Generation Sequences (NGS) with hundreds of millions of reads in a time and memory efficient manner. Its algorithm joins highly similar sequences into clusters that can differ by up to three mismatches and three overhanging residues.
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SEED: efficient clustering of next-generation sequences.
Bao E, Jiang T, Kaloshian I, Girke T.
Bioinformatics. 2011 Sep 15;27(18):2502-9. doi: 10.1093/bioinformatics/btr447. Epub 2011 Aug 2.