Published April 14, 2026 | Version v2.0.2
Software Open

Infection Dating Tool

Authors/Creators

  • 1. SACEMA, Stellenbosch University & Vitalant Research Institute
  • 2. Vitalant Research Institute & Facente Consulting
  • 3. Implicit Design
  • 4. SACEMA, Stellenbosch University

Contributors

Data collector:

  • 1. SACEMA, Stellenbosch University
  • 2. University of Cape Town
  • 3. Vitalant Research Institute
  • 4. Public Health England
  • 5. University of California San Francisco
  • 6. US Centers for Disease Control and Prevention

Description

This tool enables systematic interpretation of diagnostic test histories into formal plausible infection intervals, using data on "diagnostic delays" (i.e. window periods) of tests, and particular (dated) positive and negative test results. It outputs a detectable infection interval: Earliest Plausible Date of Detectable Infection (EP-DDI), Latest Plausible DDI (LP-DDI) and the midpoint of the interval as an infection time point estimate, or Estimated Date of Detectable Infection (EDDI). Detectable infection (for HIV) is by default defined as test conversion on a viral load assay with a detection threshold of 1 RNA copy/ml, but arbitrary reference tests or the exposure event may be used as time-zero.

Files

Files (89.0 kB)

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md5:80b26f6c14674b7616fde1ef45030fef
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Additional details

Software

Repository URL
https://github.com/eduardgrebe/infection-dating-tool
Programming language
Python
Development Status
Active

References

  • Grebe E, Facente SN, Bingham J, Pilcher CD, Powrie A, Gerber J, Priede G, Chibawara T, Busch MP, Murphy G, Kassanjee R, Welte A. Interpreting HIV Diagnostic Histories into Infection Time Estimates: Analytical Framework and Online Tool  JMIR Preprints. 20/11/2018:12872  doi:10.2196/preprints.12872.