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met v1: expanding on old estimations of biodiversity from eDNA with a new database framework
A long-standing problem in environmental DNA has been the inability to compute across large number of datasets. Here we introduce an open-source software framework that can store a large number of environmental DNA datasets, as well as provide a platform for analysis, in an easily customizable way....
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Oxford University Press
2022
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9216496/ https://www.ncbi.nlm.nih.gov/pubmed/35543254 http://dx.doi.org/10.1093/database/baac032 |
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author | Molik, David C |
author_facet | Molik, David C |
author_sort | Molik, David C |
collection | PubMed |
description | A long-standing problem in environmental DNA has been the inability to compute across large number of datasets. Here we introduce an open-source software framework that can store a large number of environmental DNA datasets, as well as provide a platform for analysis, in an easily customizable way. We show the utility of such an approach by analyzing over 1400 arthropod metabarcode datasets. This article introduces a new software framework, met, which utilizes large numbers of metabarcode datasets to draw conclusions about patterns of diversity at large spatial scales. Given more accurate estimations on the distribution of variance in metabarcode datasets, this software framework could facilitate novel analyses that are outside the scope of currently available similar platforms. Database URL https://osf.io/spb8v/ |
format | Online Article Text |
id | pubmed-9216496 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-92164962022-06-23 met v1: expanding on old estimations of biodiversity from eDNA with a new database framework Molik, David C Database (Oxford) Database Tool A long-standing problem in environmental DNA has been the inability to compute across large number of datasets. Here we introduce an open-source software framework that can store a large number of environmental DNA datasets, as well as provide a platform for analysis, in an easily customizable way. We show the utility of such an approach by analyzing over 1400 arthropod metabarcode datasets. This article introduces a new software framework, met, which utilizes large numbers of metabarcode datasets to draw conclusions about patterns of diversity at large spatial scales. Given more accurate estimations on the distribution of variance in metabarcode datasets, this software framework could facilitate novel analyses that are outside the scope of currently available similar platforms. Database URL https://osf.io/spb8v/ Oxford University Press 2022-05-11 /pmc/articles/PMC9216496/ /pubmed/35543254 http://dx.doi.org/10.1093/database/baac032 Text en © The Author(s) 2022. Published by Oxford University Press. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
spellingShingle | Database Tool Molik, David C met v1: expanding on old estimations of biodiversity from eDNA with a new database framework |
title |
met v1: expanding on old estimations of biodiversity from eDNA with a new database framework |
title_full |
met v1: expanding on old estimations of biodiversity from eDNA with a new database framework |
title_fullStr |
met v1: expanding on old estimations of biodiversity from eDNA with a new database framework |
title_full_unstemmed |
met v1: expanding on old estimations of biodiversity from eDNA with a new database framework |
title_short |
met v1: expanding on old estimations of biodiversity from eDNA with a new database framework |
title_sort | met v1: expanding on old estimations of biodiversity from edna with a new database framework |
topic | Database Tool |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9216496/ https://www.ncbi.nlm.nih.gov/pubmed/35543254 http://dx.doi.org/10.1093/database/baac032 |
work_keys_str_mv | AT molikdavidc metv1expandingonoldestimationsofbiodiversityfromednawithanewdatabaseframework |