Workflow and calibration tools

IDM also makes several tools available to simplify user interactions with disease models. These tools help with configuration of the model, commissioning and running simulations, calibration, and analysis of modeling results. Several of these tools are specific to the EMOD model, which provides several different simtypes for simulating the transmission dynamics of different diseases.

Model	Tool	Code repository	Tool documentation	Description
Model agnostic	idmtools	https://github.com/InstituteforDiseaseModeling/idmtools	idmtools docs	idmtools is a collection of Python scripts and utilities created to streamline user interactions with disease models, from the creation of input files (if required), to commissioning and running simulations, through the analysis of results. It can be used to interact with a variety of models, such as custom models written in R or Python, Starsim, or EMOD.
Model agnostic	idmtools-local	https://github.com/InstituteforDiseaseModeling/idmtools_local	idmtools-local docs	idmtools_local is a collection of Python scripts and utilities for running idmtools workflows locally.
Model agnostic	idmtools_calibra	https://github.com/InstituteforDiseaseModeling/idmtools-calibra	idmtools_calibra docs	idmtools_calibra is a collection of Python scripts and utilities to aid in model calibration.
Model agnostic	history-matching	https://github.com/InstituteforDiseaseModeling/history_matching	history-matching docs	History matching is a Python tool that finds regions of parameter space that are non-implausible with respect to observed data. It is currently in development.
EMOD (all simtypes)	emod-api	https://github.com/InstituteforDiseaseModeling/emod-api	emod-api docs	emod-api is a Python library for interacting with EMOD input and output files.
EMOD (all simtypes)	emodpy	https://github.com/InstituteforDiseaseModeling/emodpy	emodpy docs	emodpy is a collection of Python scripts and utilities created to streamline user interactions with EMOD and idmtools, agnostic of the disease being simulated.
EMOD (generic simtype)	emodpy-generic	https://github.com/InstituteforDiseaseModeling/emodpy-generic	emodpy-generic docs	emodpy-generic is a Python library with scripts and tooling to use the EMOD generic model.
EMOD (generic simtype configured for measles)	emodpy-measles	https://github.com/InstituteforDiseaseModeling/emodpy-measles	emodpy-measles docs	emodpy-measles is a Python library with scripts and tooling to model measles with the EMOD generic model.
EMOD (HIV simtype)	emodpy-hiv	https://github.com/InstituteforDiseaseModeling/emodpy-hiv	emodpy-hiv docs	emodpy-hiv is a Python library with scripts and tooling to use the EMOD HIV model.
EMOD (HIV simtype)	hiv_workflow	https://github.com/InstituteforDiseaseModeling/hiv_workflow	hiv_workflow docs	hiv_workflow is a collection of Python scripts and libraries utilizing idmtools, idmtools-calibra, and emodpy-hiv for calibration and running of the EMOD HIV model.
EMOD (malaria simtype)	emodpy-malaria	https://github.com/InstituteforDiseaseModeling/emodpy-malaria	emopdy-malaria docs	emodpy-malaria is a Python library with scripts and tooling to use the EMOD malaria model.
EMOD (TBHIV simtype for tuberculosis)	emodpy-tbhiv	https://github.com/InstituteforDiseaseModeling/emodpy-tbhiv	emodpy-tbhiv docs	emodpy-tbhiv is a Python library with scripts and tooling to use the EMOD tuberculosis (TBHIV) model.

Examples of workflows that use the idmtools and emodpy packages are available in the Jupyter notebooks for emodpy documentation.