Code and data for: Traits, threats, and popularity explain extinction risk of bird

Name: Code and data for: Traits, threats, and popularity explain extinction risk of bird
Creator: figshare
Published: 2025-05-01 03:38:47
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DataCite Commons2025-05-01 更新2025-05-07 收录

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README for Supplementary MaterialsTitle of Paper: Traits, threats, and popularity explain extinction risk of birds globally Authors: Janaina Serrano, Lars Iversen, Laura Pollock DescriptionThis README file provides an overview of the dataset, columns, and code files included in the supplementary materials for the paper titled Traits, threats, and popularity explain extinction risk of birds globally. The dataset contains information on bird species, their traits, threats they face, habitat characteristics, and popularity metrics. The associated code files are provided to facilitate reproducibility and further exploration.Files in Supplementary Materials1. Dataset FileFilename: datFormat: CSVDataset DescriptionColumns in the DatasetColumn NameDescriptionspeciesScientific name of the bird species.threatenedBinary indicator of whether the species is classified as threatened (1/0).HabitatPrimary habitat type for the species.Order1Taxonomic order to which the species belongs.total_threatsTotal number of threats affecting the species.MigrationMigration status of the species (e.g., migratory or non-migratory).HabitatBreadthBreadth of habitat types the species can occupy (numerical value).Range.SizeGeographical range size of the species (in square kilometers).MassBody mass of the species (in grams).gbif_meanMean number of GBIF records indicating species' data availability.meanMean number of Google search hits for the species (popularity metric).pollutionImpact of pollution threats on the species.loggingImpact of logging threats on the species.invasiveImpact of invasive species threats on the species.agricultureImpact of agricultural activities on the species.climate_changeImpact of climate change threats on the species.huntingImpact of hunting threats on the species.Mass.logLog-transformed body mass.Range.Size.logLog-transformed range size.gbif_mean.logLog-transformed GBIF mean value.HabitatBreadth.logLog-transformed habitat breadth.google.logLog-transformed Google search popularity.Migration1Categorical indicator of migration type.Mass.log.csCentered and scaled log-transformed body mass.Range.Size.log.csCentered and scaled log-transformed range size.gbif_mean.log.csCentered and scaled log-transformed GBIF mean value.HabitatBreadth.log.csCentered and scaled log-transformed habitat breadth.google.log.csCentered and scaled log-transformed Google popularity. 2. Code FilesDescriptions of the provided code files:FilenameDescriptiondataprep_birdtraitsScript for preparing and cleaning the bird trait dataset. Includes processes like data wrangling, standardization of column names, log-transformations of variables, and preparation of final input data for analysis.model_figures_scriptScript to generate the main figures from the paper. This includes plotting extinction risk models, trait relationships, and visualizations of the species' threats and popularity metrics.model_evaluation_bivmapScript for model evaluation and bivariate mapping. Evaluates the predictive performance of models and creates spatial maps to visualize overlaps modeled extinction risk and observed conservation status of birds.gtrendsScript for collecting and processing Google Trends data related to species' popularity. Retrieves search hit data, processes it for analysis, and calculates summary metrics like mean hits and log-transformed values.GBIF_download Script for collecting and processing GBIF number of observations for birds globally from 2004-2021. Retrieves GBIF data, processes it for analysis, and calculates average species observations per year.Data Usage and CitationThe dataset is provided as supplementary material for the paper and can be used for academic purposes. If you use this dataset, please cite the paper as follows:Serrano J., Iversen L., Pollock L. (2025). Traits, threats, and popularity explain extinction risk of birds globally.Contact InformationFor questions about the dataset or paper, please contact:Janaina Serrano: janaina.serrano@mail.mcgill.caLars Iversen: lars.iversen@mcgill.caLaura Pollock: laura.pollock@mcgill.ca

补充材料说明文档 论文标题： 全球鸟类灭绝风险的影响因素：物种性状、威胁因子与受欢迎度（Traits, threats, and popularity explain extinction risk of birds globally） 作者： 贾纳伊娜·塞拉诺（Janaina Serrano）、拉斯·艾弗森（Lars Iversen）、劳拉·波洛克（Laura Pollock） 文档说明 本说明文档用于概述本论文配套补充材料中包含的数据集、数据集列项与代码文件。本数据集涵盖鸟类物种信息、物种性状、面临的威胁因子、生境特征以及受欢迎度指标。配套代码文件旨在支持研究结果可复现与后续拓展研究。 补充材料包含文件 1. 数据集文件 文件名： dat 格式： CSV 数据集列项说明 列名说明 species 鸟类物种的科学学名 threatened 物种是否被列为受威胁物种的二元指示变量（1表示受威胁，0表示未受威胁） Habitat 该物种的主要生境类型 Order1 该物种所属的生物分类目 total_threats 影响该物种的威胁因子总数 Migration 该物种的迁徙状态（如迁徙型或非迁徙型） HabitatBreadth 该物种可栖息的生境类型数量（数值型变量） Range.Size 该物种的地理分布范围面积（单位：平方千米） Mass 该物种的体质量（单位：克） gbif_mean 表示物种数据可获得性的GBIF（Global Biodiversity Information Facility）记录均值 mean 该物种的谷歌搜索点击量均值（受欢迎度指标） pollution 污染类威胁对该物种的影响程度 logging 伐木类威胁对该物种的影响程度 invasive 外来入侵物种威胁对该物种的影响程度 agriculture 农业活动对该物种的影响程度 climate_change 气候变化类威胁对该物种的影响程度 hunting 狩猎类威胁对该物种的影响程度 Mass.log 经对数转换的体质量数据 Range.Size.log 经对数转换的分布区面积数据 gbif_mean.log 经对数转换的GBIF记录均值 HabitatBreadth.log 经对数转换的生境宽度数据 google.log 经对数转换的谷歌搜索受欢迎度数据 Migration1 迁徙类型的分类指示变量 Mass.log.cs 经中心化与标准化处理的对数转换体质量数据 Range.Size.log.cs 经中心化与标准化处理的对数转换分布区面积数据 gbif_mean.log.cs 经中心化与标准化处理的对数转换GBIF记录均值 HabitatBreadth.log.cs 经中心化与标准化处理的对数转换生境宽度数据 google.log.cs 经中心化与标准化处理的对数转换谷歌搜索受欢迎度数据 2. 代码文件 代码文件说明 文件名说明 dataprep_birdtraits 鸟类性状数据集预处理与清洗脚本，涵盖数据整理、列名标准化、变量对数转换以及分析用最终输入数据制备等流程 model_figures_script 论文主图生成脚本，用于绘制灭绝风险模型、性状关系图以及物种威胁因子与受欢迎度指标的可视化结果 model_evaluation_bivmap 模型评估与双变量绘图脚本，用于评估模型预测性能，并绘制空间地图以可视化预测的鸟类灭绝风险与实际保护等级的重叠情况 gtrends 物种受欢迎度相关谷歌趋势（Google Trends）数据采集与处理脚本，用于获取搜索点击量数据、处理后用于分析并计算均值点击量、对数转换值等汇总指标 GBIF_download 2004-2021年全球鸟类GBIF（Global Biodiversity Information Facility）观测数据采集与处理脚本，用于获取GBIF数据、处理后用于分析并计算物种年均观测次数均值 数据使用与引用说明 本数据集作为本论文的配套补充材料发布，仅可用于学术研究用途。若您使用本数据集，请按以下方式引用本论文： 塞拉诺 J., 艾弗森 L., 波洛克 L. (2025). 全球鸟类灭绝风险的影响因素：物种性状、威胁因子与受欢迎度. 联系方式 若您对本数据集或论文有任何疑问，请联系： 贾纳伊娜·塞拉诺（Janaina Serrano）: janaina.serrano@mail.mcgill.ca 拉斯·艾弗森（Lars Iversen）: lars.iversen@mcgill.ca 劳拉·波洛克（Laura Pollock）: laura.pollock@mcgill.ca

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