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油橄榄工具:一种用于油橄榄花粉形态孢粉学研究的开源软件。

OLEAtool: An open-source software for morphopalynological research in L. pollen.

作者信息

Servera-Vives Gabriel, Ricucci Cristina, Snitker Grant

机构信息

ArqueoUIB, Department of Historical Sciences and Theory of Art, University of the Balearic Islands, Carretera de Valldemossa Km 7,5, CP07122 Palma, Mallorca, Spain.

Laboratory of Palynology and Palaeobotany, Department of Life Sciences, Università degli Studi di Modena e Reggio Emilia, Modena, Italy.

出版信息

Open Res Eur. 2024 Mar 11;3:29. doi: 10.12688/openreseurope.15309.2. eCollection 2023.

DOI:10.12688/openreseurope.15309.2
PMID:38846176
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11153994/
Abstract

In this paper we present OLEAtool, a new software tool for palynological research to facilitate morphological analysis and measurements of pollen. OLEAtool is a macro extension for use with ImageJ, an open-access and freely available image analysis software, and was developed as a component of the OLEA-project. This larger project examines olive tree expansion and mosaic landscape formation on the Balearic Islands. Pollen analysis of both fossil and modern grains has been proven useful for characterizing cultivars and therefore an important method for studying olive tree cultivation in the Mediterranean. However, these methods still struggle with distinguishing between wild and cultivated varieties. Traditional morphological analysis of pollen grains can be a difficult and time-consuming task. However, OLEAtool dramatically increases the speed of collecting data on pollen grains, expands the number of variables an analyst can measure, and greatly enhances the replicability of morphological analysis.

摘要

在本文中,我们介绍了OLEAtool,这是一种用于孢粉学研究的新软件工具,可促进花粉的形态分析和测量。OLEAtool是一个与ImageJ(一款开放获取且免费的图像分析软件)配合使用的宏扩展,它是作为OLEA项目的一个组件开发的。这个更大的项目研究了巴利阿里群岛上橄榄树的扩张和镶嵌景观的形成。对化石和现代花粉粒的分析已被证明有助于鉴定品种,因此是研究地中海地区橄榄树种植的重要方法。然而,这些方法在区分野生和栽培品种方面仍存在困难。传统的花粉粒形态分析可能是一项艰巨且耗时的任务。然而,OLEAtool极大地提高了收集花粉粒数据的速度,扩展了分析人员可以测量的变量数量,并大大增强了形态分析的可重复性。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a605/11154007/abbd5eddb95c/openreseurope-3-18890-g0004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a605/11154007/bafbe05a1be6/openreseurope-3-18890-g0000.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a605/11154007/283440a700f9/openreseurope-3-18890-g0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a605/11154007/93434ddbed20/openreseurope-3-18890-g0002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a605/11154007/1ba652b4e51c/openreseurope-3-18890-g0003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a605/11154007/abbd5eddb95c/openreseurope-3-18890-g0004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a605/11154007/bafbe05a1be6/openreseurope-3-18890-g0000.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a605/11154007/283440a700f9/openreseurope-3-18890-g0001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a605/11154007/93434ddbed20/openreseurope-3-18890-g0002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a605/11154007/1ba652b4e51c/openreseurope-3-18890-g0003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a605/11154007/abbd5eddb95c/openreseurope-3-18890-g0004.jpg

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本文引用的文献

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Improving classification of pollen grain images of the POLEN23E dataset through three different applications of deep learning convolutional neural networks.通过深度学习卷积神经网络的三种不同应用提高 POLEN23E 数据集花粉粒图像的分类。
PLoS One. 2018 Sep 14;13(9):e0201807. doi: 10.1371/journal.pone.0201807. eCollection 2018.
2
The complex history of the olive tree: from Late Quaternary diversification of Mediterranean lineages to primary domestication in the northern Levant.橄榄树的复杂历史:从晚第四纪地中海谱系的多样化到黎凡特北部的原始驯化。
Proc Biol Sci. 2013 Feb 6;280(1756):20122833. doi: 10.1098/rspb.2012.2833. Print 2013 Apr 7.
3
NIH Image to ImageJ: 25 years of image analysis.
NIH 图像到 ImageJ:25 年的图像分析。
Nat Methods. 2012 Jul;9(7):671-5. doi: 10.1038/nmeth.2089.