Data for: Capturing complex interactions in disease ecology with simplicial sets

<p>Here we provide archived code for: Code for Capturing Complex Interactions in Disease Ecology with Simplicial Sets. Ecology Letters. The code provided can be used to generate the figures used in the manuscript as well as to generate appendix 3 in the supplementary materials. In the paper, we describe how higher-order network approaches can be applied in disease ecology research. We explain <em>what</em> simplicial sets are; <em>why</em> their use would be beneficial in different subject areas; <em>where</em> these areas are: social, transmission, movement/spatial and ecological networks; and <em>when</em> using them would help most in each context. To demonstrate their application, we develop a novel approach to identify how pathogens persist within a host population (see code for Appendix 3 in this repository). We also provide an overview of <em>how</em> to use simplicial sets, highlighting specific metrics, generative models and software. Finally, we <em>synthesize</em> key research questions simplicial sets will help us answer and highlight the methodological developments required.</p>