Background Advances in next generation sequencing make it possible to obtain high-
coverage sequence data for large numbers of viral strains in a short time. However, since …

Herpes simplex virus (HSV) is a widespread pathogen that causes epithelial lesions with
recurrent disease that manifests over a lifetime. The lifelong aspect of infection results from …

Herpes simplex viruses (HSVs) are difficult to sequence due to their large DNA genome,
high GC content, and the presence of repeats. To date, most HSV genomes have been …

Background: Virus discovery using high-throughput next-generation sequencing has
become more commonplace. However, although analysis of deep next-generation …

Whole genome sequencing of viruses provides high-resolution molecular insights,
enhancing our understanding of viral genome function and phylogeny. Beyond fundamental …

Next-generation sequencing (NGS) is a powerful tool for detecting and investigating viral
pathogens; however, analysis and management of the enormous amounts of data …

Motivation: Next-generation sequencing technologies sequence viruses with ultra-deep
coverage, thus promising to revolutionize our understanding of the underlying diversity of …

Thanks to high-throughput sequencing technologies, genome sequencing has become a
common component in nearly all aspects of viral research; thus, we are experiencing an …

Motivation: An accurate genome assembly from short read sequencing data is critical for
downstream analysis, for example allowing investigation of variants within a sequenced …

Whole genome sequencing of viruses directly from clinical samples is integral for
understanding the genetics of host-virus interactions. Here, we report the use of sample …