PHVG workflows
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Sharing of sample read and assembly data through internationally accessible databases allows insights to be drawn about how the virus is spreading and mutating across the globe. This allows international researchers and public health scientists to use these data and help all of us make stronger public health decisions.
The Mercury workflow series was developed to allow users to efficiently and accurately prepare submission files for GISAID, SRA, and Genbank submissions as well as BioSample registration. These workflows were developed to ingest read, assembly, and metadata files associated with SARS-CoV-2 amplicon reads from clinical samples and format these data for submission per the Public Health Alliance for Genomic Epidemiology (PH4GE)’s SARS-CoV-2 Contextual Data Specifications.
A series of introductory training videos provide a conceptual overview of the methods and walkthrough tutorials on how to use these Mercury workflows through Terra are available on the Theiagen Genomics YouTube page:
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