# gempyor: modeling infectious disease dynamics

- [Modeling infectious disease dynamics](/flepimop/gempyor/model-description.md)
- [Model Implementation](/flepimop/gempyor/model-implementation.md)
- [flepiMoP's configuration file](/flepimop/gempyor/model-implementation/introduction-to-configuration-files.md)
- [Specifying population structure](/flepimop/gempyor/model-implementation/specifying-population-structure.md): This page describes how users specify the names, sizes, and connectivities of the different subpopulations comprising the total population to be modeled
- [Specifying compartmental model](/flepimop/gempyor/model-implementation/compartmental-model-structure.md): This section describes how to specify the compartmental model of infectious disease transmission.
- [Specifying initial conditions](/flepimop/gempyor/model-implementation/specifying-initial-conditions.md): This section describes how to specify the values of each model state at the time the simulation starts, and how to make instantaneous changes to state values at other times (e.g., due to importations)
- [Specifying seeding](/flepimop/gempyor/model-implementation/specifying-seeding.md): This section describes how to specify the values of each model state at the time the simulation starts, and how to make instantaneous changes to state values at other times (e.g., due to importations)
- [Specifying observational model](/flepimop/gempyor/model-implementation/outcomes-for-compartments.md): This page describes how to specify the outcomes section of the configuration file
- [Distributions](/flepimop/gempyor/model-implementation/distributions.md): This page describes the configuration schema for specifying distributions
- [Specifying time-varying parameter modifications](/flepimop/gempyor/model-implementation/intervention-templates.md): This section describes how to specify modifications to any of the parameters of the transmission model or observational model during certain time periods.
- [Other configuration options](/flepimop/gempyor/model-implementation/other-configuration-options.md)
- [Code structure](/flepimop/gempyor/model-implementation/code-structure.md)
- [Model Output](/flepimop/gempyor/output-files.md): (This section describes the location and contents of each of the output files produced during a non-inference model run)