Safe sequencing depth to estimate the intra-host heterogeneity of viruses

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Abstract

Massively parallel sequencing allows efficient determination of genomic sequences and intra-host polymorphisms for viruses. However, the sequencing depth that guarantees safe interpretation of the observed data is unclear. We demonstrated that 10-fold genome coverage may allow safe genome assembly, and 1000-fold coverage is required to obtain reliable polymorphism estimation.

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