6. Server Features

De EBDWiki

Hardware summary:

Xseries 3690 X5

IBMSystem x3650 M3

2 Intel Xeon 5600 series processors of 10-core and 20 thread each. Total threads: 40.

Memory: 64 GB RAM (expandable up to 1 TB)

Internal storage: 2 internal SAS HDD of 160 GB (expandable up to 8,4 TB).

External storage: 2 TB external HDD accessed through Fiber Channel card.


Software installed:

Several genomic tools for general use have been installed, including both for command-line usage and Graphical user interface (GUI) applications.

Command-line usage are:

• Bedtools Version 2.15.0

• BWA Version 0.6.1-r104

• Coevol Version 1.1

• Cosi Version 1.2.1

• EIGENSOFT Version 4.2

• FastQC Version 0.10.1

• Fastx toolkit Version 0.0.13

• GATK Version 1.6.5

• GATK Version 2.1.9

• MS

• MSHOT

• Migrate

• Picard Tools Version 1.66

• Stacks Version 0.9992

• Structure Version 2.3.3

• SAMTools Version 0.1.18

• Variscan Version 2.0


Graphical user interface (GUI):

• Galaxy

• Geneious Version 5.6.3

• GPRO Version 1.1.0

• IGV Version 2.0.35

• Stacks web interface Version 0.9992

• 454 GS Junior Software: amplicons, assembly and mapper.


Last update, November 2012

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