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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...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Cambridge University Press
2020
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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. |
format | Online Article Text |
id | pubmed-10095969 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Cambridge University Press |
record_format | MEDLINE/PubMed |
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 |
work_keys_str_mv | AT bertelsjonas leafkinanrpackageforautomatedkinematicdataanalysisofmonocotleaves AT beemstergerritts leafkinanrpackageforautomatedkinematicdataanalysisofmonocotleaves |