{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,26]],"date-time":"2026-08-26T13:55:29Z","timestamp":1787752529588,"version":"build-2784847793"},"reference-count":34,"publisher":"Oxford University Press (OUP)","issue":"5","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2014,3,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Motivation: Determining the fraction of the diversity within a microbial community sampled and the amount of sequencing required to cover the total diversity represent challenging issues for metagenomics studies. Owing to these limitations, central ecological questions with respect to the global distribution of microbes and the functional diversity of their communities cannot be robustly assessed.<\/jats:p>\n                  <jats:p>Results: We introduce Nonpareil, a method to estimate and project coverage in metagenomes. Nonpareil does not rely on high-quality assemblies, operational taxonomic unit calling or comprehensive reference databases; thus, it is broadly applicable to metagenomic studies. Application of Nonpareil on available metagenomic datasets provided estimates on the relative complexity of soil, freshwater and human microbiome communities, and suggested that \u223c200 Gb of sequencing data are required for 95% abundance-weighted average coverage of the soil communities analyzed.<\/jats:p>\n                  <jats:p>Availability and implementation: Nonpareil is available at https:\/\/github.com\/lmrodriguezr\/nonpareil\/ under the Artistic License 2.0.<\/jats:p>\n                  <jats:p>Contact: \u00a0kostas@ce.gatech.edu.<\/jats:p>\n                  <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btt584","type":"journal-article","created":{"date-parts":[[2013,10,12]],"date-time":"2013-10-12T20:09:21Z","timestamp":1381608561000},"page":"629-635","source":"Crossref","is-referenced-by-count":233,"title":["Nonpareil: a redundancy-based approach to assess the level of coverage in metagenomic datasets"],"prefix":"10.1093","volume":"30","author":[{"given":"Luis M.","family":"Rodriguez-R","sequence":"first","affiliation":[{"name":"1 Center for Bioinformatics and Computational Genomics, 2School of Biology and 3School of Civil and Environmental Engineering, Georgia Institute of Technology, 311 Ferst Drive, Ford ES&T Building, Suite 3224, Atlanta, GA 30332, USA"},{"name":"1 Center for Bioinformatics and Computational Genomics, 2School of Biology and 3School of Civil and Environmental Engineering, Georgia Institute of Technology, 311 Ferst Drive, Ford ES&T Building, Suite 3224, Atlanta, GA 30332, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Konstantinos T.","family":"Konstantinidis","sequence":"additional","affiliation":[{"name":"1 Center for Bioinformatics and Computational Genomics, 2School of Biology and 3School of Civil and Environmental Engineering, Georgia Institute of Technology, 311 Ferst Drive, Ford ES&T Building, Suite 3224, Atlanta, GA 30332, USA"},{"name":"1 Center for Bioinformatics and Computational Genomics, 2School of Biology and 3School of Civil and Environmental Engineering, Georgia Institute of Technology, 311 Ferst Drive, Ford ES&T Building, Suite 3224, Atlanta, GA 30332, USA"},{"name":"1 Center for Bioinformatics and Computational Genomics, 2School of Biology and 3School of Civil and Environmental Engineering, Georgia Institute of Technology, 311 Ferst Drive, Ford ES&T Building, Suite 3224, Atlanta, GA 30332, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2013,10,11]]},"reference":[{"key":"2023012710430603100_btt584-B1","doi-asserted-by":"crossref","first-page":"830","DOI":"10.1093\/bioinformatics\/btt047","article-title":"Filtering duplicate reads from 454 pyrosequencing data","volume":"29","author":"Balzer","year":"2013","journal-title":"Bioinformatics"},{"key":"2023012710430603100_btt584-B2","doi-asserted-by":"crossref","first-page":"1074","DOI":"10.1101\/gr.8.10.1074","article-title":"Analysis of the quality and utility of random shotgun sequencing at low redundancies","volume":"8","author":"Bouck","year":"1998","journal-title":"Genome Res."},{"key":"2023012710430603100_btt584-B3","doi-asserted-by":"crossref","first-page":"335","DOI":"10.1038\/nmeth.f.303","article-title":"QIIME allows analysis of high-throughput community sequencing data","volume":"7","author":"Caporaso","year":"2010","journal-title":"Nat. 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