############################################################################## ### PhageOMatic v. 0.2 ### ### Copyright 2011 Geraldine A. Van der Auwera ### ############################################################################## This project consists of a library of packages and a main script that can be run as a pipeline. The pipeline script is designed to run quality control and custom filtering on Illumina data, perform assembly and identify contigs of interest based on COG keywords. The primary application it was designed for is to identify plasmid contigs in unfinished microbial genomes and producing preliminary assemblies. STATUS: The code is operational but requires setting up some files and config parameters manually. This procedure is not yet described in the documentation. As of 15 Oct 2011 development is on hold.