VirAmp is a galaxy-based system for fast virus genome assembly and variation discovery.
Quick Start Guide:
1) Launch the latest version of the "Szpara_Viramp" AMI from Amazon Web Services
2) SSH into the server and start the run.sh script using screen
./run.sh
For further information on the individual tools VirAmp utilizes please see the following websites:
seqtk <https://github.com/lh3/seqtk>_diginorm <http://ged.msu.edu/angus/diginorm-2012/tutorial.html>_velvet <http://www.ebi.ac.uk/~zerbino/velvet/>_AMOS <http://sourceforge.net/apps/mediawiki/amos/index.php?title=AMOS>_Quast <http://bioinf.spbau.ru/quast>_MUMmer <http://mummer.sourceforge.net/>_Circos <http://circos.ca/>_This repository has been published in GigaScience <http://www.gigasciencejournal.com/>_
To access the repository as at time of publication, use commit SHA 5e8aaef12192165718c66d4919ed21bb308a4600.
Detailed documentation at: Read The Docs <http://viramp.readthedocs.org/>_