Data from: Publication reform to safeguard wildlife from researcher harm

Data preparation codeThis is a data preparation file. The code incorporates external guidelines scores into journal scores to account for journal referral to external guidelines using hierarchical approach (see Fig B in S1 Text).Script1_Data-preparation.RLogistic regression analysis and Poisson regression analysisCode to conduct logistic regression analysis to test for associations between the presence of any animal care policy and journal characteristics (impact factor, open-access status, animal welfare legislation in country of the journals’ headquarters, and whether the journal was conservation-oriented). We centered all predictors (subtracted the mean from each observation) and scaled (divided by 2 SDs). This file also includes code for a Poisson regression analysis to test for associations with number of criteria detected among journals that had an animal care policy and the same journal characteristics. For the latter, criteria were considered fulfilled if a journal received any score other than “none”.Script2_Data-analyses.RPlot proportion of journals that fulfill a given criterionThis file contains code to create Fig. 1 in the main text of the manuscript, which plots proportions of journals that fulfill a given criterion based on compliance language (i.e., requirement (3), recommendation (2), suggestion (1) or absent (0)).Script3_Plot-proportions.RCoefficient plotCode for coefficient plot in main text (Fig 2.). Use 'model-rescale-coef-names.csv' to extract label names from external CSV.Script4_Coefficient-plot.RRaw journal dataScores assigned to journals based on compliance language used by journals. Use Script1_Data-preparation.R to incorporate external guideline scores into final journal score. See README file for more information.JournalData.csvExternal and publishing house guidelinesScores assigned to external and publishing house guidelines based on compliance language. Use Script1_Data-preparation_KField.R to incorporate external guideline scores into final journal score. See README file associated with JournalData.csv for more information.ExternalGuidelines.csvLabel names for coefficient plotThis file contains label names, which are called into Script4_Coefficient-plot.R to create coefficient plot.model-rescale-coef-names_submit.csv

数据准备代码
本文件为数据准备脚本。代码采用分层方法（详见补充材料S1文本中的图B），将外部指南评分整合至期刊评分内，以覆盖经外部指南审核的期刊。
Script1_Data-preparation.R
逻辑回归与泊松回归分析代码
本代码用于执行逻辑回归分析，以检验任意动物护理政策的存在与否与期刊特征间的关联，期刊特征包括：影响因子、开放获取状态、期刊总部所在国家的动物福利立法情况，以及期刊是否为保护导向型期刊。我们对所有预测变量进行了中心化处理（每个观测值减去均值）并标准化（除以2倍标准差）。
本文件同时包含泊松回归分析代码，用于检验已制定动物护理政策的期刊中，被检出的标准数量与上述期刊特征间的关联。对于后者分析，若期刊获得除“无”之外的任意评分，则视为满足对应标准。
Script2_Data-analyses.R
满足特定标准的期刊占比绘图
本文件包含用于生成论文正文图1的代码，该图基于合规措辞类型（即要求（3）、推荐（2）、建议（1）或无相关表述（0））绘制了满足各特定标准的期刊占比。
Script3_Plot-proportions.R
系数绘图代码
本代码用于生成论文正文的系数绘图（图2），需从外部CSV文件model-rescale-coef-names.csv中提取标签名称。
Script4_Coefficient-plot.R
原始期刊数据
基于期刊使用的合规措辞为期刊分配的评分。需使用Script1_Data-preparation.R将外部指南评分整合至最终期刊评分中。更多详细信息请参阅README文件。
JournalData.csv
外部与出版社指南
基于合规措辞为外部指南及出版社指南分配的评分。需使用Script1_Data-preparation_KField.R将外部指南评分整合至最终指南评分中。更多详细信息请参阅与JournalData.csv配套的README文件。
ExternalGuidelines.csv
系数绘图标签名称
本文件包含标签名称，将在Script4_Coefficient-plot.R中被调用以生成系数绘图。
model-rescale-coef-names_submit.csv