Overview
About MAAGE
Welcome to the Help Documentation site for the Midwest Alliance for Applied Genomic Epidemiology (MAAGE). This project is designed to support analytical and bioinformatic needs of public health organizations. MAAGE provides integrated tools, workflows, and data resources for pathogen surveillance, outbreak response, genomic epidemiology, and infectious disease research. Leveraging the proven scientific and technical foundation of BV-BRC, the MAAGE platform adapts these capabilities for public health use cases by emphasizing usability, interoperability, rapid analysis, and actionable reporting. The platform supports the analysis and interpretation of bacterial and viral genomic data through scalable workflows for genome assembly, annotation, comparative genomics, phylogenetics, antimicrobial resistance characterization, and molecular surveillance. MAAGE is a project is supported by the Centers for Disease Control and Prevention (CDC) of the U.S. Department of Health and Human Services (HHS) through a financial assistance award to the Illinois Department of Public Health (IDPH). The contents are solely the responsibility of IDPH and its partners and do not necessarily represent the official views of, nor imply endorsement by, CDC/HHS or the U.S. Government.
Help Documentation Organization
The MAAGE Help Documentation is organized into several subsections:
Quick Start: provides set of introductory videos and documents designed to help users, especially those coming from PATRIC and IRD/ViPR, get started using MAAGE.
Quick Reference Guides: provide succinct overviews of specific feature (data, tool, functionality) within the resource with definitions of all of its component parts.
Tutorials: provide detailed, step-by-step instructions with screen captures to illustrate how to use a particular data type or tool and interpret its results, often with additional information and rationale to enhance its use in the context of a broader biological question.