SARS-CoV-2 infection dynamics revealed by wastewater sequencing analysis and deconvolution.

ABSTRACT: The use of RNA sequencing from wastewater samples is a valuable way for estimating infection dynamics and circulating lineages of SARS-CoV-2. This approach is independent from testing individuals and can therefore become the key tool to monitor this and potentially other viruses. However, it is equally important to develop easily accessible and scalable tools which can highlight critical changes in infection rates and dynamics over time across different locations given sequencing data from wastewater. Here, we provide an analysis of lineage dynamics in Berlin and New York City using wastewater sequencing and present PiGx SARS-CoV-2, a highly reproducible computational analysis pipeline with comprehensive reports. This end-to-end pipeline includes all steps from raw data to shareable report

SUBMITTER: Schumann VF 

PROVIDER: S-EPMC9549760 | biostudies-literature | 2022 Dec

REPOSITORIES: biostudies-literature