Help: GMI Outbreak Detection

Inputs Outputs Method



Input parameters

The workflow requires four input parameters:

  • A single input file that contains the phylogenetic tree with the predicted outbreak to be evaluated against the correpondent metrics reference datasets (accepted tree formats are Nexus and Newick).
    When uploading your predictions, make sure that you define the following File Type and Data Type for this file, to make sure that VRE understand the type of data your are importing:
FORMAT TYPE         DATA TYPE
NEWICK/NEXUS        Data to Evaluate

At Get Data -> Import Sample Data you'll be able to donwload a test sample file for this workflow.

  • The Benchmarking Event Identifier, which corresponds to the Event/Challenge where the predictions are benchmarked (e.g. Organization, Date, Workshop/Congress...)
  • The name of the tool used for the outbreak prediction.
  • The tree format of the submitted file (Nexus/Newick), which is selected from a drop-down list.