PVAmpliconFinder: a workflow for the identification of human papillomaviruses from high-throughput amplicon sequencing.

ABSTRACT:

Background

The detection of known human papillomaviruses (PVs) from targeted wet-lab approaches has traditionally used PCR-based methods coupled with Sanger sequencing. With the introduction of next-generation sequencing (NGS), these approaches can be revisited to integrate the sequencing power of NGS. Although computational tools have been developed for metagenomic approaches to search for known or novel viruses in NGS data, no appropriate tool is available for the classification and identification of novel viral sequences from data produced by amplicon-based methods.

Results

We have developed PVAmpliconFinder, a data analysis workflow designed to rapidly identify and classify known and potentially new Papillomaviridae sequences from NGS amplicon sequencing with degenerate

SUBMITTER: Robitaille A 

PROVIDER: S-EPMC7282039 | biostudies-literature | 2020 Jun

REPOSITORIES: biostudies-literature