High Performance Computing Resources

The Center for Systems and Computational Biology has a range of high performance computing resources available to the Institute community:

CSCB Cluster  

120 Cores, Intel Xeon X5650 2.66 GHz
216 Cores, Intel Xeon E5-2440 2.40GHz
2,592 GB Memory
1TB scratch disk storage per node
Rocks Cluster OS (Red Hat Enterprise Linux 5 Compatible)

CSCB Compute

12 Cores, Intel Xeon X5670 2.93 GHz
96 GB Ram
1.5 TB scratch disk storage
Red Hat Enterprise Linux 5 OS

Software List

Matlab R2013a
alexa_seq-1.17
annovar-2012Feb23
autodock_vina-1.1.2
AutoGrow-2.0.4
bam2fastq-1.1.0
BEDTools-2.13.3
blat
boost-1.46.1
boost-1.48.0
boost-1.51.0
bowtie-0.12.7
bowtie2-2.0.0-beta5
bowtie2-2.0.0-beta6
bowtie2-2.0.6
bowtie2-2.1.0
breakdancer-1.1_2011_02_21
bwa-0.5.9
bwa-0.6.2
cufflinks-1.0.0
cufflinks-1.3.0
cufflinks-2.0.0
cufflinks-2.0.1
cufflinks-2.0.2
FastQC
fastx_toolkit-0.0.13.2
GEM-NM-2
GenomeAnalysisTK-2.1-11-g13c0244
gnuplot-4.4.4
hydra-0.5.3
jksrc
libgtextutils-0.6
libgtextutils-0.6.1
LifeScope-2.5.1-102906_20120412100448
mgltools-1.5.4
modeller-9.11
mosaik-aligner-1.1.0018
mrsfast-2.3.0.2
ncbi-blast-2.2.26+
novoalignCS-1.02.02
novoalignCSMPI-1.02.02
novoalignMPI-2.08.02
novocraft-2.08.02
novocraftV2.07.18
novosort-1.00.01
parallel-20120822
perl-5.8.x
phrap-0.990329
picard-tools-1.47
picard-tools-1.64
picard-tools-1.94
pmap-11-25-2010
python-2.7.1
python-2.7.2
python-3.2.2
R-2.14.1
R-2.15.1
RepeatMasker
rmblast-1.2-ncbi-blast-2.2.23+
samtools-0.1.16
samtools-0.1.18
samtools-0.1.19
seqgene2_5
SHRiMP_2_2_3
snappy-java-1.0.3-rc3.jar
SVDetect_r0.8
tophat-1.3.2
tophat-1.3.3
tophat-1.4.0
tophat-2.0.0
tophat-2.0.3
tophat-2.0.7
tophat-2.0.8b
trf-404
trinityrnaseq_r2012-06-08
XSQ_Tools