idopNetwork as a tool to dissect complex systems

Abstract

The past few years have seen the development of powerful computational models for reconstructing informative, dynamic, omnidirectional, and personalized networks (idopNetworks) of complex systems. We pack an R-based cartographic tool for idopNetwork reconstruction from any data. The tool includes several key steps, including fitting power curve fitting based on allometrical scaling law, functional clustering, LASSO-based variable selection, quasi-dynamic ordinary differential equation solving, species abundance decomposition and network visualization. Ultimately, it can coalesce all nodes into multilayer idopNetworks. We demonstrate the utility of this tool by analyzing different organs that are spatially interconnected via microbiomes using two datasets from the gut microbiota and plant microbiota. Given that biodiversity and organization vary biogeographically at different scales, idopNetwork will find its widespread application to modelling and estimating interspecific interactions with differing functions across space.