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lakemorpho: Calculating lake morphometry metrics in R

Metrics describing the shape and size of lakes, known as lake morphometry metrics, are important for any limnological study. In cases where a lake has long been the subject of study these data are often already collected and are openly available. Many other lakes have these data collected, but acces...

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Autores principales: Hollister, Jeffrey, Stachelek, Joseph
Formato: Online Artículo Texto
Lenguaje:English
Publicado: F1000 Research Limited 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5698920/
https://www.ncbi.nlm.nih.gov/pubmed/29188019
http://dx.doi.org/10.12688/f1000research.12512.1
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author Hollister, Jeffrey
Stachelek, Joseph
author_facet Hollister, Jeffrey
Stachelek, Joseph
author_sort Hollister, Jeffrey
collection PubMed
description Metrics describing the shape and size of lakes, known as lake morphometry metrics, are important for any limnological study. In cases where a lake has long been the subject of study these data are often already collected and are openly available. Many other lakes have these data collected, but access is challenging as it is often stored on individual computers (or worse, in filing cabinets) and is available only to the primary investigators. The vast majority of lakes fall into a third category in which the data are not available. This makes broad scale modelling of lake ecology a challenge as some of the key information about in-lake processes are unavailable. While this valuable in situ information may be difficult to obtain, several national datasets exist that may be used to model and estimate lake morphometry. In particular, digital elevation models and hydrography have been shown to be predictive of several lake morphometry metrics. The R package lakemorpho has been developed to utilize these data and estimate the following morphometry metrics: surface area, shoreline length, major axis length, minor axis length, major and minor axis length ratio, shoreline development, maximum depth, mean depth, volume, maximum lake length, mean lake width, maximum lake width, and fetch. In this software tool article we describe the motivation behind developing lakemorpho, discuss the implementation in R, and describe the use of lakemorpho with an example of a typical use case.
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spelling pubmed-56989202017-11-28 lakemorpho: Calculating lake morphometry metrics in R Hollister, Jeffrey Stachelek, Joseph F1000Res Software Tool Article Metrics describing the shape and size of lakes, known as lake morphometry metrics, are important for any limnological study. In cases where a lake has long been the subject of study these data are often already collected and are openly available. Many other lakes have these data collected, but access is challenging as it is often stored on individual computers (or worse, in filing cabinets) and is available only to the primary investigators. The vast majority of lakes fall into a third category in which the data are not available. This makes broad scale modelling of lake ecology a challenge as some of the key information about in-lake processes are unavailable. While this valuable in situ information may be difficult to obtain, several national datasets exist that may be used to model and estimate lake morphometry. In particular, digital elevation models and hydrography have been shown to be predictive of several lake morphometry metrics. The R package lakemorpho has been developed to utilize these data and estimate the following morphometry metrics: surface area, shoreline length, major axis length, minor axis length, major and minor axis length ratio, shoreline development, maximum depth, mean depth, volume, maximum lake length, mean lake width, maximum lake width, and fetch. In this software tool article we describe the motivation behind developing lakemorpho, discuss the implementation in R, and describe the use of lakemorpho with an example of a typical use case. F1000 Research Limited 2017-09-21 /pmc/articles/PMC5698920/ /pubmed/29188019 http://dx.doi.org/10.12688/f1000research.12512.1 Text en Copyright: © 2017 Hollister J and Stachelek J 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
Hollister, Jeffrey
Stachelek, Joseph
lakemorpho: Calculating lake morphometry metrics in R
title lakemorpho: Calculating lake morphometry metrics in R
title_full lakemorpho: Calculating lake morphometry metrics in R
title_fullStr lakemorpho: Calculating lake morphometry metrics in R
title_full_unstemmed lakemorpho: Calculating lake morphometry metrics in R
title_short lakemorpho: Calculating lake morphometry metrics in R
title_sort lakemorpho: calculating lake morphometry metrics in r
topic Software Tool Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5698920/
https://www.ncbi.nlm.nih.gov/pubmed/29188019
http://dx.doi.org/10.12688/f1000research.12512.1
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