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Optimizing digitalization effort in morphometrics
Quantifying phenotypes is a common practice for addressing questions regarding morphological variation. The time dedicated to data acquisition can vary greatly depending on methods and on the required quantity of information. Optimizing digitization effort can be done either by pooling datasets amon...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7723759/ https://www.ncbi.nlm.nih.gov/pubmed/33324759 http://dx.doi.org/10.1093/biomethods/bpaa023 |
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author | Evin, Allowen Bonhomme, Vincent Claude, Julien |
author_facet | Evin, Allowen Bonhomme, Vincent Claude, Julien |
author_sort | Evin, Allowen |
collection | PubMed |
description | Quantifying phenotypes is a common practice for addressing questions regarding morphological variation. The time dedicated to data acquisition can vary greatly depending on methods and on the required quantity of information. Optimizing digitization effort can be done either by pooling datasets among users, by automatizing data collection, or by reducing the number of measurements. Pooling datasets among users is not without risk since potential errors arising from multiple operators in data acquisition prevent combining morphometric datasets. We present an analytical workflow to estimate within and among operator biases and to assess whether morphometric datasets can be pooled. We show that pooling and sharing data requires careful examination of the errors occurring during data acquisition, that the choice of morphometric approach influences amount of error, and that in some cases pooling data should be avoided. The demonstration is based on a worked example (Sus scrofa teeth) using a combinations of 18 morphometric approaches and datasets for which we identified and quantified several potential sources of errors in the workflow. We show that it is possible to estimate the analytical power of a study using a small subset of data to select the best morphometric protocol and to optimize the number of variables necessary for analysis. In particular, we focus on semi-landmarks, which often produce an inflation of variables in contrast to the number of available observations use in statistical testing. We show how the workflow can be used for optimizing digitization efforts and provide recommendations for best practices in error management. |
format | Online Article Text |
id | pubmed-7723759 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-77237592020-12-14 Optimizing digitalization effort in morphometrics Evin, Allowen Bonhomme, Vincent Claude, Julien Biol Methods Protoc Methods Manuscript Quantifying phenotypes is a common practice for addressing questions regarding morphological variation. The time dedicated to data acquisition can vary greatly depending on methods and on the required quantity of information. Optimizing digitization effort can be done either by pooling datasets among users, by automatizing data collection, or by reducing the number of measurements. Pooling datasets among users is not without risk since potential errors arising from multiple operators in data acquisition prevent combining morphometric datasets. We present an analytical workflow to estimate within and among operator biases and to assess whether morphometric datasets can be pooled. We show that pooling and sharing data requires careful examination of the errors occurring during data acquisition, that the choice of morphometric approach influences amount of error, and that in some cases pooling data should be avoided. The demonstration is based on a worked example (Sus scrofa teeth) using a combinations of 18 morphometric approaches and datasets for which we identified and quantified several potential sources of errors in the workflow. We show that it is possible to estimate the analytical power of a study using a small subset of data to select the best morphometric protocol and to optimize the number of variables necessary for analysis. In particular, we focus on semi-landmarks, which often produce an inflation of variables in contrast to the number of available observations use in statistical testing. We show how the workflow can be used for optimizing digitization efforts and provide recommendations for best practices in error management. Oxford University Press 2020-11-16 /pmc/articles/PMC7723759/ /pubmed/33324759 http://dx.doi.org/10.1093/biomethods/bpaa023 Text en © The Author(s) 2020. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://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 | Methods Manuscript Evin, Allowen Bonhomme, Vincent Claude, Julien Optimizing digitalization effort in morphometrics |
title | Optimizing digitalization effort in morphometrics |
title_full | Optimizing digitalization effort in morphometrics |
title_fullStr | Optimizing digitalization effort in morphometrics |
title_full_unstemmed | Optimizing digitalization effort in morphometrics |
title_short | Optimizing digitalization effort in morphometrics |
title_sort | optimizing digitalization effort in morphometrics |
topic | Methods Manuscript |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7723759/ https://www.ncbi.nlm.nih.gov/pubmed/33324759 http://dx.doi.org/10.1093/biomethods/bpaa023 |
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