VGA is a tool for assembling individual viral genomes from a sample that consists of diverse populations of viruses. It takes advantage of high sequencing depth to detect rare variants and requires sequencing library with barcodes attached to sequencing fragments.
Sequence assembly
Mangul S, Wu NC, Mancuso N, Zelikovsky A, Sun R, Eskin E "Accurate viral population assembly from ultra-deep sequencing data." Bioinformatics. 2014 Jun 15;30(12):i329-37. https://doi.org/10.1093/bioinformatics/btu295
PMID: 24932001
PMCID: PMC4058922
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