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- Metasystems
- The Network Weather Service ( NWS )
- D-system project
- DAGH project (data fusion)
- KeLP ( Kernel Lattice Parallelism
- Global Optimization algorithms
- Computing distance training
- Compilers for Parallel computing
- NetSolve project
- Titanium project
- Distributed Object Computational Testbed (DOCT)
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- Digital libraries ( Alexandria , Berkeley )
- Data-handling system
- DICE system
- XML Development
- The Active Data Repository (ADR)
- Meta-Chaos library
- High Performance Storage System (HPSS)
- Bioinformatics
- Protein Data Bank
- Biological Data Representation
- Biology workbench
- Real-Time Coastal Data Acquisition
- SWB - Sociology Work Bench
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- Scalable visualization project
- Visualization tools project
- Application of visualization tools
- The SDSC research gallery
- Graphic course
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- Protein Data Bank (PDB)
- Biological Data Representation
- Protein Folding
- Biology workbench
- MOOSE, Macromolecular Object-Oriented Search Engine
- Nucleic acid database
- Microstructure Image-Based Collaboratory (MIBC)
- Enhanced Biological Imaging
- MEME: Sequence analysis
- NBCR: The National Biomedical Computation Resource.
- Telescience project
- Cholesterol-membrane interactions
- Telemicroscopy
- The CMS Molecular Biology Resource
- Bioinformatics
- MICE: Molecular Interactive Collaborative Environment
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- Center for Visualization Prototypes (CVP)
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- Neural Simulation System
- Neuroscience
- Brain Data
- Bone Stress
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- Galaxies evolution modeling
- Pixon – image reconstruction technique
- Digital Sky project
- Galactic travel animation
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- Surface and ground water models
- Biological-Scale Modeling
- Multi-Scale Environmental Modeling
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- Ocean climate modeling software
- Quantitative geography
- Aerosol distribution simulation
- Computational Fluid Dynamics
- Geodynamic simulation
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- VASP
- Energy barriers in chemical processes
- GAMESS (General Atomic and Molecular Electronic Structure Systems)
- POLYRATE (chemical kinetics )
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- SDSU Education Center on Computational Science and Engineering
- Supercomputer Teacher Enhancement Program
- SDSC Science Enrichment Program
- Teacher Training for K-12
- Research Experience for Undergraduates
- Learning Technologies
- eTEACH
- "Why files" project
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- Oil reservoir simulation
- Characterization of engineering materials
- Simulation of electromagnetic and acoustic fields
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