VirusTAP: Viral Genome-Targeted Assembly Pipeline

Akifumi Yamashita, Tsuyoshi Sekizuka, Makoto Kuroda
2016 Frontiers in Microbiology  
Although next-generation sequencing (NGS) technology provides a comprehensive means with which to identify potential pathogens from clinical specimens, simple and user-friendly bioinformatics pipelines are expected to obtain the entire viral genome sequence, subsequently providing traceability, based on extensive molecular phylogenetic analyses. We have developed a web-based integrated NGS analysis tool for the viral genome (virus genome-targeted assembly pipeline: VirusTAP), which includes
more » ... nsive sequence subtraction of host-or bacteria-related NGS reads prior to de novo assembly, leading to the prompt and accurate assembly of viral genome sequences from metagenomic NGS reads. The VirusTAP web site is at https://gph.niid.go.jp/cgi-bin/virustap/index.cgi/.
doi:10.3389/fmicb.2016.00032 pmid:26870004 pmcid:PMC4735447 fatcat:eqont4syvvg5pmcdrzgauzlkzi