Species-level microbial sequence classification is improved by source-environment information
dc.contributor.author
Kaehler, Benjamin D.
dc.contributor.author
Bokulich, Nicholas
dc.contributor.author
McDonald, Daniel
dc.contributor.author
Knight, Rob
dc.contributor.author
Caporaso, J. Gregory
dc.contributor.author
Huttley, Gavin A.
dc.date.accessioned
2020-08-17T11:49:08Z
dc.date.available
2020-08-12T10:16:42Z
dc.date.available
2020-08-17T11:49:08Z
dc.date.issued
2019-02-14
dc.identifier.other
10.1101/406611
en_US
dc.identifier.uri
http://hdl.handle.net/20.500.11850/431207
dc.identifier.doi
10.3929/ethz-b-000431207
dc.description.abstract
Popular naive Bayes taxonomic classifiers for amplicon sequences assume that all species in the reference database are equally likely to be observed. We demonstrate that classification accuracy degrades linearly with the degree to which that assumption is violated, and in practice it is always violated. By incorporating environment-specific taxonomic abundance information, we demonstrate that species-level resolution is attainable.
en_US
dc.format
application/pdf
en_US
dc.language.iso
en
en_US
dc.publisher
Cold Spring Harbor Laboratory
en_US
dc.rights.uri
http://creativecommons.org/licenses/by/4.0/
dc.title
Species-level microbial sequence classification is improved by source-environment information
en_US
dc.type
Working Paper
dc.rights.license
Creative Commons Attribution 4.0 International
ethz.journal.title
bioRxiv
ethz.pages.start
406611
en_US
ethz.size
46 p.
en_US
ethz.publication.place
Cold Spring Harbor, NY
en_US
ethz.publication.status
published
ethz.leitzahl
ETH Zürich::00002 - ETH Zürich::00012 - Lehre und Forschung::00007 - Departemente::02070 - Dep. Gesundheitswiss. und Technologie / Dep. of Health Sciences and Technology::02701 - Inst.f. Lebensmittelwiss.,Ernährung,Ges. / Institute of Food, Nutrition, and Health::09714 - Bokulich, Nicholas / Bokulich, Nicholas
en_US
ethz.relation.isPreviousVersionOf
10.3929/ethz-b-000431166
ethz.date.deposited
2020-08-12T10:16:50Z
ethz.source
BATCH
ethz.eth
no
en_US
ethz.availability
Open access
en_US
ethz.rosetta.installDate
2020-08-17T11:49:55Z
ethz.rosetta.lastUpdated
2023-02-06T20:22:21Z
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true
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Working Paper [5652]