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Published August 27, 2018 | Version v1
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Chlamydia-like organisms in Bufo bufo tadpoles from ponds located in the Geneva metropolitan area: r scripts

Authors/Creators

  • 1. Laboratory of Geographic Information Systems (LASIG), School of Architecture, Civil and Environmental Engineering (ENAC), École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
  • 2. Laboratory of Geographic Information Systems (LASIG), School of Architecture, Civil and Environmental Engineering (ENAC), École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland; Forum Biodiversity Switzerland (SCNAT), Berne, Switzerland
  • 3. La Source, School of Nursing, University of Applied Sciences and Arts Western Switzerland (HES-SO), Lausanne, Switzerland
  • 4. Institute of Microbiology, Lausanne University Hospital (CHUV) and University of Lausanne (UNIL), Lausanne, Switzerland
  • 5. Laboratory of Geographic Information Systems (LASIG), School of Architecture, Civil and Environmental Engineering (ENAC), École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland; Unit of Population Epidemiology, Division of Primary Care Medicine, Department of Community Medicine, Primary Care and Emergency Medicine, Geneva University Hospitals; Institute of Social and Preventive Medicine (IUMSP), Division of chronic diseases (dMC), Lausanne University Hospital (CHUV), Lausanne, Switzerland

Description

R scripts used to perform the analyses described in the manuscript "Indication of spatially random infection of chlamydia-like organisms in Bufo bufo tadpoles from ponds located in the Geneva metropolitan area". Each zipped file contains the concerned R script and input files required to run the analyses, as well as a README file describing and explaining how to re-run the analyses. In this way, data analysis can be reproduced as reported in the aforementioned manuscript.

In particular:

1 - Spatial autocorrelation analysis.7z contains the script and data to run the analysis described in the section Global spatial autocorrelation, as reported in the manuscript;

2 - Correlation test infection rates - human pop. density.7z contains the script and data to run the analysis described in the section Human population density around ponds, as reported in the manuscript;

3 - Hierarchical clustering and group comparison analysis.7z contains the script and data to run the analyses described in the section Group comparison analysis, as reported in the manuscript; an additional script (General Figure.R) is reported to reproduce Figure 5.

4 - Association analysis.7z contains the script and data to run the analysis described in the section Beta regression models, as reported in the manuscript.

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