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SARS-CoV-2 Virus Sequencing SARS-CoV-2COVID-19
SARS-CoV-2 Virus Sequencing
updated 16 November 2020
Virus sequencing of patients infected with COVID-19 from Southern California, Tijuana, New Orleans and Jordan by the SEARCH Alliance along with a large number of partners. The virus sequence data will be used to to gain insights into the emergence and spread of SARS-CoV-2. The sequencing is being performed using an amplicon-based sequencing scheme using PrimalSeq with artic nCoV-2019 scheme. Nanopore data was processed using the artic-nCoV019 pipeline with minimap2 and medaka. Illumina data was processed using iVar (Grubaguh et al. Genome Biology 2019) with bwa. Methodology is available at https://github.com/andersen-lab/HCoV-19-Genomics
How to cite
The Center for Viral Systems Biology, 2020, "SARS-CoV-2 Virus Sequencing", https://data.cvisb.org/sarscov2-virus-seq, V.
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