Bioinformatics Programs and Computer Cluster
Available Commercial Bioinformatics Software Packages:
- CLC-Genomics Workbench (http://www.clcbio.com/products/clc-genomics-workbench/)
- DNAStar (http://www.dnastar.com/)
All modules that are part of the Galaxy project (https://usegalaxy.org/ ) are accessible through a graphical user interface running on our local server.
These include the popular analysis softwares BWA, Bowtie1/2, SAMtools, BEDtools, Picard, Tophat1/2, Cufflinks 2, fastqc, fastx, MACS and various data grooming and conversion tools. The server also has various software packages like GATK, BLAST+ and Trinity installed, but these are not accessible through the graphical user interface.
The IPA/Ingenuity pathway analysis software (http://www.ingenuity.com/) package for pathway analysis is in the process of being implemented and not available yet.
- High-Performance Computing Cluster: The bioinformatics team has unlimited priority access to the local high performance computing cluster (HPC) located at the campus of the University of Wisconsin Milwaukee.
- SlipStream Appliance – Galaxy Edition (http://bioteam.net/slipstream/galaxy-edition/): The Great Lakes Genomics Center owns its own high memory server running the Galaxy software package (512 Gigabytes RAM, 32 CPUs)
The Bioinformatics Team of the Great Lakes Genomics Center is offering various services to researchers and interested parties from both academia and the private sector.