Quikr: a method for rapid reconstruction of bacterial communities via compressive sensing | Zendy

David Koslicki | Zendy; Simon Foucart | Zendy; Gail Rosen | Zendy

AI Assistant Blog Pricing

Home ZAIA Blog

Open Access

Quikr: a method for rapid reconstruction of bacterial communities via compressive sensing

Author(s) -

David Koslicki,

Simon Foucart,

Gail Rosen

Publication year - 2013

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btt336

Subject(s) - computer science , python (programming language) , metagenomics , data mining , matlab , classifier (uml) , amplicon , software , levenshtein distance , machine learning , artificial intelligence , pattern recognition (psychology) , biology , polymerase chain reaction , biochemistry , gene , programming language , operating system

Many 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.

The content you want is available to Zendy users.

Already have an account? Click here to sign in.

Having issues? You can contact us here

Accelerating Research