The aim of the European Sero-Epidemiology Network 2 (ESEN2) is to compare standardised serological results of vaccine preventable diseases across Europe. In order to adjust for laboratory and assay differences, the participant laboratories tested a standardisation panel for each disease and the results were plotted against those of a reference centre in order to obtain standardisation equations. We describe an algorithm for obtaining these equations which took into account outliers, censored data and model selection, and needed to be robust due to the variety of assays and diseases under investigation. If the standardisation equations explained sufficient variability, these were used to convert each country's main serum bank results to a common unitage, thereby allowing international comparisons to be made.