RESOURCES

RESOURCES

In addition to models, researchers also have access to the following resources:

Apollo Library of Standardized Machine Interpretable Information

The Apollo Library is a curated collection of disease outbreak information from published sources in human readable and machine readable formats (JSON and XML).  The library is particularily useful for disease modelers who can use the disease outbreak information to directly parameterize their models. An epidemiologist can use the library as a easy to read reference.

Ontology-based Catalog for Infectious Disease Epidemiology (OBC.ide)

OBC.ide allows a user to search for information needed to develop disease transmission models.  OBC.ide currently indexes publications, datasets, and reports.

OBC.ide Retrieval Page

Synthetic Ecosystems

  • To provide modelers with agent-based information for reality-based simulations, MIDAS scientists have created a series of "synthesized" human and animal populations. Read more

Olympus High Performance Compute Cluster

Apollo Location Services

  • A database of geographic locations and identfiers over time accessible via a web service and application.  It presents a temporally coherent source of geopolitical, administrative and epidemic boundaries, e.g., Sudan prior to 7/9/2011, Sudan and South Sudan post 7/9/2011.  It also provides standardized representations of geometries of locations in geojson and xml formats.  Access the web application at http://betaweb.rods.pitt.edu/ls.  Access the web service at https://betaweb.rods.pitt.edu/ls/api-docs.

Zika Repository

  •  This page lists all items in the OBC.ide Zika collection.  It includes datasets, publications, models, software and reports that are about Zika, beginning with the most recent publications.  Link to the Zika Repository.

Ebola Information Repository

  • This Repository contains links to ontologically indexed materials provided to MIDAS, links to important sites, and additional data collected to support modeling efforts. Link to Ebola Information Repository.
  • Submit additional resources here.

Dengue Information Repository

  • This page lists all items in the OBC.ide Dengue collection.  It includes datasets, publications, models, software and reports that are about Dengue, beginning with the most recent publications.  Link to Dengue Information Repository.
  • Submit additional resources here.

Chikungunya Virus Repository

  • This page lists all items in the OBC.ide Chikungunya collection.  It includes datasets, publications, models, software and reports that are about Chikungunya, beginning with the most recent publications.  Link to Chikungunya Virus Repository.
  • Submit additional resources here

Betacoronavirus Repository

  •  This page lists all items in the OBC.ide novel betacoronavirus collection.  It includes datasets, publications, models, software and reports that are about novel betacoronaviruses, including SARS and MERS, beginning with the most recent publications.  Link to Betacoronavirus Repository.

Staphylococcus aureus Repository

  •  This page lists all items in the OBC.ide Staphylococcus aureus collection.  It includes datasets, publications, models, software and reports that are about Staphylococcus aureus, beginning with the most recent publications.  Link to Staphylococcus aureus Repository.

H7N9 Repository

  •  This page lists all items in the OBC.ide H7N9 collection.  It includes datasets, publications, models, software and reports that are about H7N9, beginning with the most recent publications.  Link to H7N9 Repository.

VBI Modeling Tools

  • Virginia Bioinformatics Institute showcased work done on Computational Epidemiology as a part of MIDAS and other funded projects at the Supercomputing 2013 conference. Link provides details of the tools and technologies presented.

 

MIDAS Data Repository

  • This Repository includes all data sets reported by the MIDAS Investigators as data that were used in MIDAS publications. In some instances the data files are available, in other instances the links to publicly available databases are provided, and in the remaining instances the Repository includes a brief description and an indication to contact the MIDAS Investigator. To access Data Respository click here.

MIDAS Software Group

  • MIDAS Network Software Repository is a place where you can learn about and download MIDAS software tools for using in epidemiology modeling, visualization, analysis and parameter estimation. Read more