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leafkin—An R package for automated kinematic data analysis of monocot leaves

Growth is one of the most studied plant responses. At the cellular level, plant growth is driven by cell division and cell expansion. A means to quantify these two cellular processes is through kinematic analysis, a methodology that has been developed and perfected over the past decades, with in-dep...

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Detalles Bibliográficos
Autores principales: Bertels, Jonas, Beemster, Gerrit T.S.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cambridge University Press 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10095969/
https://www.ncbi.nlm.nih.gov/pubmed/37077328
http://dx.doi.org/10.1017/qpb.2020.3
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author Bertels, Jonas
Beemster, Gerrit T.S.
author_facet Bertels, Jonas
Beemster, Gerrit T.S.
author_sort Bertels, Jonas
collection PubMed
description Growth is one of the most studied plant responses. At the cellular level, plant growth is driven by cell division and cell expansion. A means to quantify these two cellular processes is through kinematic analysis, a methodology that has been developed and perfected over the past decades, with in-depth descriptions of the methodology available. Unfortunately, after performing the lab work, researchers are required to perform time-consuming, repetitive and error-prone calculations. To lower the barrier towards this final step in the analysis and to aid researchers currently applying this technique, we have created leafkin, an R-package to perform all the calculations involved in the kinematic analysis of monocot leaves using only four functions. These functions support leaf elongation rate calculations, fitting of cell length profiles, extraction of fitted cell lengths and execution of kinematic equations. With the leafkin package, kinematic analysis of monocot leaves becomes more accessible than before.
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spelling pubmed-100959692023-04-18 leafkin—An R package for automated kinematic data analysis of monocot leaves Bertels, Jonas Beemster, Gerrit T.S. Quant Plant Biol Original Research Article Growth is one of the most studied plant responses. At the cellular level, plant growth is driven by cell division and cell expansion. A means to quantify these two cellular processes is through kinematic analysis, a methodology that has been developed and perfected over the past decades, with in-depth descriptions of the methodology available. Unfortunately, after performing the lab work, researchers are required to perform time-consuming, repetitive and error-prone calculations. To lower the barrier towards this final step in the analysis and to aid researchers currently applying this technique, we have created leafkin, an R-package to perform all the calculations involved in the kinematic analysis of monocot leaves using only four functions. These functions support leaf elongation rate calculations, fitting of cell length profiles, extraction of fitted cell lengths and execution of kinematic equations. With the leafkin package, kinematic analysis of monocot leaves becomes more accessible than before. Cambridge University Press 2020-11-30 /pmc/articles/PMC10095969/ /pubmed/37077328 http://dx.doi.org/10.1017/qpb.2020.3 Text en © The Author(s) 2020 https://creativecommons.org/licenses/by/4.0/This is an Open Access article, distributed under the terms of the Creative Commons Attribution licence (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted re-use, distribution, and reproduction in anymedium, provided the original work is properly cited.
spellingShingle Original Research Article
Bertels, Jonas
Beemster, Gerrit T.S.
leafkin—An R package for automated kinematic data analysis of monocot leaves
title leafkin—An R package for automated kinematic data analysis of monocot leaves
title_full leafkin—An R package for automated kinematic data analysis of monocot leaves
title_fullStr leafkin—An R package for automated kinematic data analysis of monocot leaves
title_full_unstemmed leafkin—An R package for automated kinematic data analysis of monocot leaves
title_short leafkin—An R package for automated kinematic data analysis of monocot leaves
title_sort leafkin—an r package for automated kinematic data analysis of monocot leaves
topic Original Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10095969/
https://www.ncbi.nlm.nih.gov/pubmed/37077328
http://dx.doi.org/10.1017/qpb.2020.3
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