Introduction

The Virus AsseMbly Pipeline (VAMP) is a set of tools designed to assist with reference guided assembly of viral genomes from paired-end Illumina sequence data.

The pipeline portion of VAMP has been replaced by VirGA (paper in progress, Moriah Szpara and Lance Parsons).

The main tools used by VirGA are maf_net.py and compare_genomes.py. There are a number of other tools which may be useful.