D. Koslicki and S. Foucart
Quikr: a method for rapid reconstruction of bacterial communities via compressive sensing.
Bioinformatics (Oxford, England)Vol. 29 No. 17
(2013) pp. 2096-102
AbstractMany metagenomic studies compare hundreds to thousands of environmental and health-related samples by extracting and sequencing their 16S rRNA amplicons and measuring their similarity using beta-diversity metrics. However, one of the first steps--to classify the operational taxonomic units within the sample--can be a computationally time-consuming task because most methods rely on computing the taxonomic assignment of each individual read out of tens to hundreds of thousands of reads.