Using GIS Dashboards to highlight AMR data disparities in Africa for policy, research, and public health

Folder: dataThis folder contains the datasets used for generating the dashboards, spatial visualizations, and heatmaps presented in the manuscript.Files IncludedAfrica_AMR_Public_Private_data.csv Summary dataset integrating public and private antimicrobial resistance (AMR) surveillance data across African countries and years. This dataset was used to generate the interactive GIS dashboards presented in Figures 1 and 3. The dataset contains aggregated country-level and year-level isolate counts derived from both public and private surveillance sources.resistance_summaries_by_country_year_pathogen_data.xlsx Aggregated resistance summary dataset containing country-, year-, pathogen-, and antibiotic-level resistance information derived from the integrated public and private AMR datasets. This dataset was used to generate the heatmap presented in Figure 4.Published_Papers_data.xlsx Dataset compiled from published AMR research studies across Africa. This dataset was used to generate the dashboard presented in Figure 5.Additional NotesThe datasets used for Figures 1, 3, and 4 represent summarized and aggregated outputs derived from the integrated public and private AMR surveillance datasets. Access to the original ATLAS dataset remains restricted according to ATLAS data access policies; therefore, only derived summary datasets are provided in this repository. The ATLAS restricted dataset contributed specifically to the analyses and dashboards presented in Figure 3.Folder: TableThis folder contains the supplementary tables associated with the manuscript.Files IncludedSupplementary_Table_S1.xlsxSupplementary_Table_S2.xlsxSupplementary_Table_S3.xlsxSupplementary_Tables_S4-S6.xlsxThese supplementary tables provide supporting information including harmonized variables, mapping tables, resistance summaries, and additional analytical outputs referenced throughout the manuscript.Folder: FigureThis folder contains the main manuscript figures and supplementary figures.Main FiguresFig_1_dashboardFig_2_dashboarbFig_3_dashboardFig_4_Country_Antibiotic_Resistance_Heatmap.pngFig_5_dashboard_of_Published_PapersSupplementary FiguresSupplementary_Fig_2_Country_Pathogen_Resistance_Heatmap and Pathogen_Antibiotic_Resistance_Heatmap.pngSupplementary_Fig_S1_Lorenz_Curves_for_Country_Contributions.pngThese figures include GIS dashboards, AMR heatmaps, resistance distribution visualizations, and supplementary analytical plots generated during the study.Folder: AnalysisThis folder contains the R scripts used to generate the dashboards, figures, and heatmaps presented in the manuscript.Files IncludedFigs_1_and_2.RFig_3.RFig_4.RFig_5.RThe scripts include data cleaning, aggregation, dashboard generation, GIS visualization, and heatmap construction workflows used in the analyses for Figures 1–5.