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User Guide for the Database-Integrated Genome Screening (DIGS) Tool, Version 1.0

Robert J. Gifford

MRC-University of Glasgow Centre for Virus Research

BACKGROUND

The database-integrated genome-screening (DIGS) tool provides a simple and highly adaptable framework for implementing bioinformatic workflows that utilize bidirectional BLAST in combination with a relational database.

I originally created the DIGS tool for my own research in the area of ‘paleovirology’, and I have primarily used it to screen genome sequence databases for sequences derived from viruses. However, I expect it may have broader utility, and it has been developed with aim of saving others the effort of creating a similar system.

How to use this guide

This guide presumes some basic familiarity with BLAST and command line programs. I suggest reading the introduction and installation pages first, and installing programs as necessary. At least a skim reading of section 2 is recommendable before attempting one of the worked examples in section 3. The worked examples should provide a level of familiarity that allows the user to set up their own screening procedure - in parallel with a more careful reading of section 2.

DISCLAIMER

This program probably contains bugs, both apparent and less apparent ones. I do not accept responsibility for any problems that arise from use of this software. Use entirely at your own risk.