Replication Data for: A new Omicron lineage with Spike Y451H mutation dominating a new COVID-19 wave in Kilifi, Coastal Kenya: March-May 2023

This dataset is part of a study that investigated the genomic epidemiology of SARS-CoV-2 in Kenya. This dataset contains results of samples positive for SARS-COV-2 by real-time PCR for the period 1st January to 27th May 2023 from Kilifi. Aside from the samples tested and results of the tests, it also contains the patients’ sociodemographic characteristic and and symptoms. The dataset is used to generate new SARS-CoV-2 genome sequences from RT-PCR positive samples collected in Kilifi. Furthermore, sequenced data from SARS-CoV-2 positive samples gathered in Nairobi, Lamu, Kwale, Mombasa, and Kwale have also been incorporated in the analysis.