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NGS compute distro proloaded with pipeline analysis software
...HOWTO:
1) Set VM network settings to a bridged adapter type.
2) Load VM to client
3) From host:
$ ssh -X ubuntu@<foobar> 'firefox && butterfly.server.py --unsecure'
--- passwd = 616287xx
5) or ssh into host with X forwarding, and type runme
This will launch an X-session of Firefox on the client, which will then be forwarded to the host. The first homepage tab links to our pipeline constructer. The second homepage tab links to a xterm session on the client.
Software included (location - name):
path - biobambam
path - bwa
path - bowtie2
path - bowtie
path - cufflinks
path - bcftools
path - tophat
path - scalpel
path - samtools
path - sra-toolkit
path - bamtools
path - delly
path - delly-parallel
path - picard-tools
path - fastahack
path - twoBitToFa
~/prog/java/ - mutect
~/prog/python/ - platypus
~/prog/java/ - gatk
...Through the use of management system MySQL database, Stantor offers automation features customizable tasks. In particular it allows cyclical, calendar and planned tasks, but it can alert when an outbreak event (mail,sms,..).It also has the ability to launch computer program for specific uses.