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Status: Unchecked ×Keyword: memory-efficient clustering ×Clear all

3 claims from 1 paper

1. Biochemistry, Genetics and Molecular Biology › Genomics and Phylogenetic Studies

   Clustering huge protein sequence sets in linear time

   Steinegger and Söding · Nature Communications · 2018

   The paper presents Linclust, a clustering method for huge protein sequence sets whose runtime scales linearly with input size, and uses it to cluster 1.6 billion metagenomic fragments in 10 hours.

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   1. UncheckedThe authors say Linclust is the first protein clustering algorithm whose runtime grows in line with the number of sequences, regardless of how many clusters result.“We developed Linclust, the first clustering algorithm whose runtime scales as N , independent of K .”
   2. UncheckedThe Linclust clustering algorithm can group protein sequence datasets that are several times larger than the computer's available main memory.“It can also cluster datasets several times larger than the available main memory.”
   3. UncheckedLinclust clustered 1.6 billion metagenomic sequence fragments to 50% sequence identity in 10 hours on one server, over 1000 times faster than before.“We cluster 1.6 billion metagenomic sequence fragments in 10 h on a single server to 50% sequence identity, >1000 times faster than has been possible before.”