VirAmp: a galaxy-based viral genome assembly pipeline.

ABSTRACT:

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 most bioinformatics tools are developed for command line use, the selection and accessibility of computational tools for genome assembly and variation analysis limits the ability of individual labs to perform further bioinformatics analysis.

Findings

We have developed a multi-step viral genome assembly pipeline named VirAmp, which combines existing tools and techniques and presents them to end users via a web-enabled Galaxy interface. Our pipeline allows users to assemble, analyze, and interpret high coverage viral sequencing data with an ease and efficiency that was not possible previously. Our software m

SUBMITTER: Wan Y 

PROVIDER: S-EPMC4410580 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature