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点模式随机性分析算法。

Algorithm for analyzing randomness in point patterns.

作者信息

Sampaio Tony, Rocha Jorge, Viana Cláudia M, Camboin Silvana, Breunig Fábio Marcelo, Nascimento Edenilson, Frick Elaine de Cacia de Lima

机构信息

Spatial Pattern Analysis and Thematic Cartography Lab, Federal University of Parana, Brazil.

Earth Science Department, Department of Geography, Federal University of Parana, Brazil.

出版信息

MethodsX. 2025 May 8;14:103360. doi: 10.1016/j.mex.2025.103360. eCollection 2025 Jun.

DOI:10.1016/j.mex.2025.103360
PMID:40488168
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12140936/
Abstract

Various tests can be used to assess whether the spatial distribution pattern of a set of points is random, dispersed, or clustered. These tests typically compare the expected and observed distances among points, assuming no barriers. However, what is deemed ``random'' in point spatial patterns may be influenced by socio-environmental factors such as wetlands or transportation networks. This tool introduces a sequence of spatial analysis procedure and a statistical testing to evaluate the correlation between observed point patterns and potential spatial determinants (polygons). If a determinant influences the observed point pattern, the classification of the distribution as random must be reconsidered. We implemented this algorithm in Python as a QGIS script with two main steps: the first handles overlay operations and preliminary calculations for the chi-square goodness-of-fit test with and without Bonferroni correction in the second step.•A detailed step-by-step procedure for analyzing randomness in point patterns in a processing toolbox Python script for integration into the open-source software QGIS.•Automated scripts for structuring data, calculating expected and observed values, and applying the chi-square goodness-of-fit test for statistical analysis.•Advanced spatial analysis using chi-square goodness of fit coupled with and without Bonferroni correction, providing deeper insight into the study of the effect of spatial phenomena on the distribution of point events.

摘要

可以使用各种测试来评估一组点的空间分布模式是随机的、分散的还是聚集的。这些测试通常会在假设没有障碍的情况下,比较各点之间的预期距离和观测距离。然而,点空间模式中被视为“随机”的情况可能会受到湿地或交通网络等社会环境因素的影响。该工具引入了一系列空间分析程序和统计测试,以评估观测到的点模式与潜在空间决定因素(多边形)之间的相关性。如果一个决定因素影响了观测到的点模式,那么将分布分类为随机的做法就必须重新考虑。我们用Python将此算法实现为一个QGIS脚本,主要有两个步骤:第一步处理叠加操作以及第二步中有无Bonferroni校正的卡方拟合优度检验的初步计算。

•在一个处理工具箱Python脚本中用于分析点模式随机性的详细分步程序,以便集成到开源软件QGIS中。

•用于构建数据、计算预期值和观测值以及应用卡方拟合优度检验进行统计分析的自动化脚本。

•使用有无Bonferroni校正的卡方拟合优度进行高级空间分析,能更深入地研究空间现象对点事件分布的影响。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/39fc/12140936/d6c0d7dfdf62/gr5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/39fc/12140936/70a8eff290a3/ga1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/39fc/12140936/70af167b4b9c/gr1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/39fc/12140936/e17069e2b22b/gr2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/39fc/12140936/85fabb1e7984/gr3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/39fc/12140936/c266c920cfb2/gr4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/39fc/12140936/d6c0d7dfdf62/gr5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/39fc/12140936/70a8eff290a3/ga1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/39fc/12140936/70af167b4b9c/gr1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/39fc/12140936/e17069e2b22b/gr2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/39fc/12140936/85fabb1e7984/gr3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/39fc/12140936/c266c920cfb2/gr4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/39fc/12140936/d6c0d7dfdf62/gr5.jpg

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本文引用的文献

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[Cumulative effects of -function in the research of point patterns].[点模式研究中 - 函数的累积效应] (注:原文中“-function”表述不太明确,可能存在信息缺失或有误,这里只能按原样翻译)
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A spatial randomness test based on the box-counting dimension.一种基于盒维数的空间随机性检验。
Adv Stat Anal. 2022;106(3):499-524. doi: 10.1007/s10182-021-00434-4. Epub 2022 Jan 5.
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A practical guide to methods controlling false discoveries in computational biology.
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Genome Biol. 2019 Jun 4;20(1):118. doi: 10.1186/s13059-019-1716-1.
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An Efficient Mixed-Model for Screening Differentially Expressed Genes of Breast Cancer Based on LR-RF.基于 LR-RF 的乳腺癌差异表达基因筛选的高效混合模型
IEEE/ACM Trans Comput Biol Bioinform. 2019 Jan-Feb;16(1):124-130. doi: 10.1109/TCBB.2018.2829519. Epub 2018 Apr 23.
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Detection and Evaluation of Spatio-Temporal Spike Patterns in Massively Parallel Spike Train Data with SPADE.使用SPADE检测和评估大规模并行脉冲序列数据中的时空脉冲模式
Front Comput Neurosci. 2017 May 24;11:41. doi: 10.3389/fncom.2017.00041. eCollection 2017.
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