ECDC HIV Modelling Tool

Topic outline

• ECDC HIV Modelling Platform

  ECDC HIV Modelling Platform

  The ECDC HIV Modelling Platform is a tool developed by ECDC in collaboration with international partners to provide estimates of the number of people living with HIV, including those not yet diagnosed. The platform can also estimate the annual number of new HIV infections, the average time between infection and diagnosis, and the number of people in need of treatment according to CD4 counts. To achieve all of this, the platform needs only routinely collected HIV surveillance data. Nearly all countries in the European region report annual HIV and AIDS diagnoses to the TESSy database hosted at ECDC.

  Given that almost all countries in the European region annually report HIV and AIDS diagnoses to the TESSy database hosted at ECDC, the materials provided in this module aim to guide users through precise steps in preparing the data. This guidance ensures that the HIV Modelling Tool runs smoothly, ultimately providing accurate estimates for each country.

  For technical support and platform problem reporting, please contact: HIV.Modelling@ecdc.europa.eu

  • ForumAnnouncements
• Resources

  Resources
  • URLDirect link to the HIV Modelling Platform
  • FileDocumentation for use of the HIV Modelling Platform
  • URLDownloadable platform

    Downloadable platform to work on your desktop.
    

  • URL Install Rtools to run the modelling tool in R

    To install the compatible version for use within R, you first need to: Install Rtools

    
    

  • URL R code to run the HIV modelling tool

    This is the code that needs to be executed to run the model in R.
    

• Instructional video modules

  Instructional video modules

  This collection of videos and presentations will help platform users understand the purpose of the tool, as well as how to prepare data and utilise the tool to obtain estimations.

  • FileModule 0. Introduction of the tool and its features
  • FileModule 1. Technical details and deployment

    How to deploy the tool, including using it as R package versions. The deployment package comprises all necessary software and R packages. The tool can be installed using standard R commands executed in the R console. For proficient R users, a CRAN-like repository is established for installing the tool as an R package. To access the repository of R packages: https://www.nextpagesoft.net/hivPlatform/repo/

  • FileModel 1b. How to prepare data, upload and map them in the tool

    The tool accepts case-based surveillance data for HIV, containing a minimum required set of variables. The tool also accepts aggregated data of the numbers of HIV diagnoses, AIDS cases and deaths, that can be used alone or in combination with case-based data in the modelling module. The support file types are: rds (R native file storage format), txt, csv, xls, xlsx Each can be compressed as zip archives for reducing upload time.

    There are several required attributes/variables by the tool to run the adjustments. The upload file must contain all these attributes/variables names. Different names of variables are accepted but the variables must be coded in the specific way.

  • FileModule 2a. How to perform and interpret missing data adjustment

    An overview of the process. Missing data present a well-recognized challenge within surveillance systems. Excluding cases with missing values from analysis can introduce bias and potentially reduce the precision of estimates.

  • FileModule 2b. Demonstration of performing and interpreting missing data adjustment

    A demonstration of the process.

  • FileModule 3. How to perform and interpret reporting delay adjustment

    An overview and demonstration of how to conduct and interpret reporting delay adjustments. Reporting delay, the time from case diagnosis to notification, can lead to problems when analysing the most recent years, given that the information on some cases or variables may not have been collected yet because of national reporting process characteristics. These phenomena are common in disease surveillance and apply to HIV.

  • FileModule 4. How to perform modelling using the previous ECDC Modelling Tool

    Background to understanding incidence modelling, including a brief introduction to the methodology used both in the ECDC Modelling Tool and HIV Platform.

  • File4b. Demonstration of performing modelling

    A demonstration of the process.

  • FileModule 5. How to select data and define populations for modeling

    An overview of data selection and and population definition for modelling, including how to generate subpopulations directly within the tool.

  • FileModule 6. How to run the model and interpret results

    An overview and demonstration of how to execute the modelling process, including how to run modelling using new feature of HIV Modelling Platform.

  • FileModule 7. How to adjust for immigration in modelling

    An overview and demonstration of migration adjustment and modelling with migration.