Directory

iAM.AMR project assets

Framework

  • The iAM.AMR.MODEL.FRAMEWORK repo contains the functions required to create and run an iAM.AMR model. All iAM.AMR models contain the iAM.AMR model framework.
  • The iAM.AMR.MODEL repo contains template models which apply the framework to different routes of exposure.
  • The iAM.AMR.PoC repo contains proof-of-concept models useful for demonstrating model functionality and performance.
  • The iAM.AMR.HUB repo contains data useful for building iAM.AMR models (e.g., baseline probabilities of resistance, microbial recovery).
Tip

Earlier versions of iAM.AMR models were developed using a “hub and spoke” approach, where each model linked back to the Hub. This is no longer the case.

Models

  • Third-generation Cephalosporin-resistant Salmonella Heidelberg in Chickens. model_3GC-SH-CH.
Tip

Other, non-public models are available to team members in the Models Directory.

Tools

  • CEDAR or the Collection of Epidemiologically Derived Associations with Resistance, is a database and associated web application used to catalog factors quantatively associated with resistance in the scientific literature.
  • sawmill is the R package used to prepare queries from CEDAR (i.e., timber) for iAM.AMR models.
  • analyticaR is an R package with helper functions, useful for working with Analytica.

Resources

  • For internal (non-public) documentation, see the iAM.AMR.TEAM repo.