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Biofilms are communities of microorganisms that grow on virtually allsurfaces with sufficient nutrients including aquatic and industrial watersystems and medical devices. Biofilms are complex, structured communities wherethe interplay of growth, metabolism, and competition between species interactwith physical processes of diffusion, convection, attachment, and detachment.This work describes a model of a one-dimensional biofilm in a stirred tankreactor that incorporates these complexities. The model is implemented in themodern Julia programming language providing an efficient tool for studying alarge variety of biofilms and the intricate communities the microorganismscreate. Details of the new software, known as Biofilm.jl, including themathematical model and organization and execution of the code, are provided.Examples of biofilms modeled using Biofilm.jl are presented such as a singleheterotroph, a sulfide-oxidizing bacteria (SOB) and sulfate-reducing bacteria(SRB), and a phototroph. Postprocessing tools are described that allow aBiofilm.jl user to make plots and extract specific values from the solution andexplore the simulated biofilm results.

Biofilm.jl: a fast solver for one-dimensional biofilm chemistry and ecology