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bwimage: A package to describe image patterns in natural structures
Currently R is the most popular software for data analyses among biologists. Here, we present bwimage, a package designed to describe patterns from black and white images. The package can be used for a wide range of applications. We implemented functions previously described in the literature to cal...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
F1000 Research Limited
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7020331/ https://www.ncbi.nlm.nih.gov/pubmed/32110388 http://dx.doi.org/10.12688/f1000research.19801.3 |
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author | Biagolini-Jr., Carlos Macedo, Regina H. |
author_facet | Biagolini-Jr., Carlos Macedo, Regina H. |
author_sort | Biagolini-Jr., Carlos |
collection | PubMed |
description | Currently R is the most popular software for data analyses among biologists. Here, we present bwimage, a package designed to describe patterns from black and white images. The package can be used for a wide range of applications. We implemented functions previously described in the literature to calculate parameters designed originally, but not exclusively, for vegetation structures. Additionally, we propose a new parameter: the aggregation index. We demonstrate applications for field work, providing examples that range from calculation of canopy openness, description of patterns in vertical vegetation structure, to patterns in bird nest structure. We provide advice and illustrated examples of how to produce high quality images for analyses. |
format | Online Article Text |
id | pubmed-7020331 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | F1000 Research Limited |
record_format | MEDLINE/PubMed |
spelling | pubmed-70203312020-02-26 bwimage: A package to describe image patterns in natural structures Biagolini-Jr., Carlos Macedo, Regina H. F1000Res Software Tool Article Currently R is the most popular software for data analyses among biologists. Here, we present bwimage, a package designed to describe patterns from black and white images. The package can be used for a wide range of applications. We implemented functions previously described in the literature to calculate parameters designed originally, but not exclusively, for vegetation structures. Additionally, we propose a new parameter: the aggregation index. We demonstrate applications for field work, providing examples that range from calculation of canopy openness, description of patterns in vertical vegetation structure, to patterns in bird nest structure. We provide advice and illustrated examples of how to produce high quality images for analyses. F1000 Research Limited 2020-04-14 /pmc/articles/PMC7020331/ /pubmed/32110388 http://dx.doi.org/10.12688/f1000research.19801.3 Text en Copyright: © 2020 Biagolini-Jr. C and Macedo RH http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Software Tool Article Biagolini-Jr., Carlos Macedo, Regina H. bwimage: A package to describe image patterns in natural structures |
title | bwimage: A package to describe image patterns in natural structures |
title_full | bwimage: A package to describe image patterns in natural structures |
title_fullStr | bwimage: A package to describe image patterns in natural structures |
title_full_unstemmed | bwimage: A package to describe image patterns in natural structures |
title_short | bwimage: A package to describe image patterns in natural structures |
title_sort | bwimage: a package to describe image patterns in natural structures |
topic | Software Tool Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7020331/ https://www.ncbi.nlm.nih.gov/pubmed/32110388 http://dx.doi.org/10.12688/f1000research.19801.3 |
work_keys_str_mv | AT biagolinijrcarlos bwimageapackagetodescribeimagepatternsinnaturalstructures AT macedoreginah bwimageapackagetodescribeimagepatternsinnaturalstructures |