This repository contains a script for analyzing SARS-CoV-2 evolution in epitopes during the first two waves of the COVID-19 pandemic. The immunological data come from a high protein density array analysis of SARS-CoV-2 epitopes in 15 patients (N'Guessan A. et al., 2022). This script and the related data can be updated manually to integrate data …

Multinomial, quasibinomial and epidemia based models for analyzing the growth of the COVID-19 Omicron (B.1.1.529) variant in Austria

In this work, we use S-gene target failure (SGTF) as a proxy of variant status combined with reported case counts to explore the evidence for changes in transmission advantage over time for the Omicron variant. If present this could indicate the impact of immune escape, bias in SGTF data or differences in the populations within which the variant…