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

README for Supplementary Materials<b>Title of Paper:</b> Traits, threats, and popularity explain extinction risk of birds globally<br><b>Authors:</b> Janaina Serrano, Lars Iversen, Laura Pollock<br>DescriptionThis README file provides an overview of the dataset, columns, and code files included in the supplementary materials for the paper titled <i>Traits, threats, and popularity explain extinction risk of birds globally</i>. 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. <b>Dataset File</b><b>Filename:</b> dat<b>Format:</b> CSVDataset DescriptionColumns in the Dataset<b>Column Name</b><b>Description</b><b>species</b>Scientific name of the bird species.<b>threatened</b>Binary indicator of whether the species is classified as threatened (1/0).<b>Habitat</b>Primary habitat type for the species.<b>Order1</b>Taxonomic order to which the species belongs.<b>total_threats</b>Total number of threats affecting the species.<b>Migration</b>Migration status of the species (e.g., migratory or non-migratory).<b>HabitatBreadth</b>Breadth of habitat types the species can occupy (numerical value).<b>Range.Size</b>Geographical range size of the species (in square kilometers).<b>Mass</b>Body mass of the species (in grams).<b>gbif_mean</b>Mean number of GBIF records indicating species' data availability.<b>mean</b>Mean number of Google search hits for the species (popularity metric).<b>pollution</b>Impact of pollution threats on the species.<b>logging</b>Impact of logging threats on the species.<b>invasive</b>Impact of invasive species threats on the species.<b>agriculture</b>Impact of agricultural activities on the species.<b>climate_change</b>Impact of climate change threats on the species.<b>hunting</b>Impact of hunting threats on the species.<b>Mass.log</b>Log-transformed body mass.<b>Range.Size.log</b>Log-transformed range size.<b>gbif_mean.log</b>Log-transformed GBIF mean value.<b>HabitatBreadth.log</b>Log-transformed habitat breadth.<b>google.log</b>Log-transformed Google search popularity.<b>Migration1</b>Categorical indicator of migration type.<b>Mass.log.cs</b>Centered and scaled log-transformed body mass.<b>Range.Size.log.cs</b>Centered and scaled log-transformed range size.<b>gbif_mean.log.cs</b>Centered and scaled log-transformed GBIF mean value.<b>HabitatBreadth.log.cs</b>Centered and scaled log-transformed habitat breadth.<b>google.log.cs</b>Centered and scaled log-transformed Google popularity.<br>2. <b>Code Files</b>Descriptions of the provided code files:<b>Filename</b><b>Description</b><b>dataprep_birdtraits</b>Script 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.<b>model_figures_script</b>Script 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.<b>model_evaluation_bivmap</b>Script 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.<b>gtrends</b>Script 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.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:<i>Serrano J., Iversen L., Pollock L. (2025). Traits, threats, and popularity explain extinction risk of birds globally.</i>Contact InformationFor questions about the dataset or paper, please contact:<b>Janaina Serrano</b>: [e-mail]<b>Lars Iversen</b>: [e-mail]<b>Laura Pollock</b>: [e-mail]

# 补充材料自述文件
<b>论文标题：</b>《全球鸟类灭绝风险的影响因素：物种特征、威胁与流行度》
<b>作者：</b>雅娜伊娜·塞拉诺（Janaina Serrano）、拉斯·艾弗森（Lars Iversen）、劳拉·波洛克（Laura Pollock）

## 数据集说明
本自述文件旨在介绍本论文《全球鸟类灭绝风险的影响因素：物种特征、威胁与流行度》补充材料中包含的数据集、数据集字段与代码文件。本数据集涵盖鸟类物种信息、物种特征、面临的威胁、栖息地特征以及流行度指标。配套提供的代码文件可助力研究可重复性验证与后续拓展探索。

## 补充材料所含文件
1. <b>数据集文件</b>
<b>文件名：</b>dat
<b>文件格式：</b>CSV

### 数据集字段说明
| 字段名 | 说明 |
| --- | --- |
| <b>species</b> | 鸟类物种的科学学名 |
| <b>threatened</b> | 物种受威胁状态的二元指示变量（1代表受威胁，0代表非受威胁） |
| <b>Habitat</b> | 该物种的主要栖息地类型 |
| <b>Order1</b> | 该物种所属的生物分类目 |
| <b>total_threats</b> | 影响该物种的威胁因素总数量 |
| <b>Migration</b> | 该物种的迁徙状态（例如：候鸟或留鸟） |
| <b>HabitatBreadth</b> | 该物种可栖息的栖息地类型数量（数值型变量） |
| <b>Range.Size</b> | 该物种的地理分布区面积（单位：平方千米） |
| <b>Mass</b> | 该物种的体质量（单位：克） |
| <b>gbif_mean</b> | 表示该物种数据可获得性的全球生物多样性信息设施（Global Biodiversity Information Facility, GBIF）平均记录数 |
| <b>mean</b> | 该物种的谷歌搜索点击量均值（流行度指标） |
| <b>pollution</b> | 污染类威胁对该物种的影响程度 |
| <b>logging</b> | 伐木类威胁对该物种的影响程度 |
| <b>invasive</b> | 入侵物种类威胁对该物种的影响程度 |
| <b>agriculture</b> | 农业活动对该物种的影响程度 |
| <b>climate_change</b> | 气候变化类威胁对该物种的影响程度 |
| <b>hunting</b> | 狩猎类威胁对该物种的影响程度 |
| <b>Mass.log</b> | 经过对数转换的体质量数据 |
| <b>Range.Size.log</b> | 经过对数转换的地理分布区面积数据 |
| <b>gbif_mean.log</b> | 经过对数转换的GBIF平均记录数数据 |
| <b>HabitatBreadth.log</b> | 经过对数转换的栖息地广度数据 |
| <b>google.log</b> | 经过对数转换的谷歌搜索热度数据 |
| <b>Migration1</b> | 表示迁徙类型的分类指示变量 |
| <b>Mass.log.cs</b> | 经过中心化与标准化处理的对数转换体质量数据 |
| <b>Range.Size.log.cs</b> | 经过中心化与标准化处理的对数转换地理分布区面积数据 |
| <b>gbif_mean.log.cs</b> | 经过中心化与标准化处理的对数转换GBIF平均记录数数据 |
| <b>HabitatBreadth.log.cs</b> | 经过中心化与标准化处理的对数转换栖息地广度数据 |
| <b>google.log.cs</b> | 经过中心化与标准化处理的对数转换谷歌搜索热度数据 |

2. <b>代码文件</b>
### 代码文件说明
| 文件名 | 说明 |
| --- | --- |
| <b>dataprep_birdtraits</b> | 鸟类特征数据集规整与清洗脚本，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 |
| <b>model_figures_script</b> | 论文主图生成脚本，可绘制灭绝风险模型、物种特征关联关系以及物种威胁与流行度指标可视化成果 |
| <b>model_evaluation_bivmap</b> | 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模拟灭绝风险与鸟类实际保护等级的重叠情况 |
| <b>gtrends</b> | 物种流行度相关谷歌趋势数据收集与处理脚本，可获取搜索点击量数据、完成分析前处理并计算均值、对数转换值等汇总指标 |

## 数据使用与引用说明
本数据集作为论文补充材料发布，仅可用于学术研究用途。若使用本数据集，请按照以下格式引用该论文：
<i>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：物种特征、威胁与流行度.</i>

## 联系方式
若对本数据集或论文有疑问，请联系以下作者：
<b>雅娜伊娜·塞拉诺（Janaina Serrano）</b>：[e-mail]
<b>拉斯·艾弗森（Lars Iversen）</b>：[e-mail]
<b>劳拉·波洛克（Laura Pollock）</b>：[e-mail]