Supporting materials for: "VirAmp: A Galaxy-based viral genome assembly pipeline".
Dataset type: Workflow, Software, Virtual-Machine
Data released on April 21, 2015
We have developed a multi-step viral genome assembly pipeline named VirAmp, that 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 makes a large number of
genome assembly and related tools available to life scientists and automates the currently
recommended best practices into a single, easy to use interface. We tested our pipeline with three
different datasets from human herpes simplex virus (HSV).
VirAmp provides a user-friendly interface and a complete pipeline for viral genome analysis. We make our software available via an Amazon Elastic Cloud disk image that can be easily launched by anyone with an Amazon web service account. A demonstration version of our system can be found at http://viramp.com. We also maintain detailed documentation on each tool and methodology at http://docs.viramp.com.
Here in GigaDB you will find an archived version of the tools as they were published.
Read the peer-reviewed publication(s):
Wan, Y., Renner, D. W., Albert, I., & Szpara, M. L. (2015). VirAmp: a galaxy-based viral genome assembly pipeline. GigaScience, 4(1). doi:10.1186/s13742-015-0060-y