INSTALLATION System Requirements • *nix OS • Minimum RAM requirement= 16GB; dependent upon Velvet needs (function of k, number of reads, and read size) • Java runtime environment version 1.6 or higher • Tested in BioLinux7 and Ubuntu 12.04.1 LTS, 64-bit OS Required Compilers/Interpreters and Software Compilers (typically distributed in *nix OS): javaC, g++ and python Software: Velvet: https://github.com/dzerbino/velvet/tree/master • Reference Velvet’s README.txt for instructions for compiling. • VirusLand assumes location of Velvet is within the /bin directory. • Tested using version 1.0.19 (current as of June 1, 2015) Emboss: http://emboss.sourceforge.net/download/ • Reference Emboss site listed here for instructions regarding unpacking and compiling. • VirusLand assumes location of Emboss is within the /bin directory. • Tested using version 6.6.0 (current as of June 1, 2015) Lambda: http://www.seqan.de/projects/lambda/ • Reference Lambda site for instructions regarding unpacking and compiling. • VirusLand assumes location of Lambda is within the /bin directory. • Tested using version 0.4.7 (current as of June 1, 2015) Bowtie2: http://bowtie-bio.sourceforge.net/bowtie2/index.shtml • Reference Bowtie2 site for instructions regarding unpacking and compiling. • VirusLand assumes location of Bowtie2 is within the /bin directory • Adding Bowtie 2 directory to your PATH environment variable. • Tested using version 2.1.0 (current as of June 1, 2015) PAUDA: http://ab.inf.uni-tuebingen.de/software/pauda/ • Application must be unzipped; VirusLand assumes location is within the /bin directory • PAUDA is dependent upon the Bowtie2 software. Bowtie2 must be installed as well. • Tested using version 1.0.1 (current as of June 1, 2015) Each tool should be added to your PATH environment variable. Note, the Bio-Linux OS includes Velvet, EMBOSS and Bowtie2 requiring only the installation of Lambda and PAUDA. Installing VirusLand Unzip the VirusLand installation package maintaining the file structure.