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Center on Human Development and Disability
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Image Analysis Component

    Brain Imaging pictures
Thomas Grabowski photo
Thomas Grabowski, M.D.
Director, Image Analysis Component
Julia Owen photo
Julia Owen, Ph.D.
Research Scientist, Image Analysis Specialist

Integrated Brain Imaging Center (IBIC)

IBIC provides support for image data analysis and statistical image processing for IDDRC affiliates. The Image Analysis Component (IAC) is supported by several scientists with expertise in various aspects of image processing such as morphometric, fMRI, perfusion, and DTI analyses. It provides assistance with design of image analysis methods as well as training for affiliates and their students/postdocs. IBIC research scientists are also available to contribute to individual projects on a contract basis if IDDRC Core resources are exceeded. Scientists are also available to develop customized software if required by studies. DISC and IBIC are adjacent to each other in the Health Sciences Building.

Programmatic space

Space and advanced workstations for data analysis and image processing are provided for affiliate use in IBIC. IBIC IT personnel provide the necessary support for computer hardware and software for use by IDDRC affiliates. A range of software tools for functional, diffusion, and structural image processing are managed in a standardized Debian Linux operating environment disc image (“Evolution”), installed across all workstations. Among available tools are FSL, SPM, AFNI, FreeSurfer, BioImage Suite, Brains, ANTS, MRIcron, Mrtrix, NIPype, R, tal_programs, AIR, and many others (more than 100 in all), as well as general purpose scientific analysis software: MATLAB, and extensive Python libraries. Also available is a MATLAB-based library of software used in advanced analysis of Event Related Potentials. It includes functions such as jitter-analysis, continuous wavelet transformation and wavelet coherence, signal pattern detection and source analysis based on a Finite Element Method.

Computing resources:

  • Seven SuperMicro Rackform U628 servers (each with 2 x Intel Xeon E5-2680v3, 2.5 GHz (12-Core, HT, 30MB Cache, 120W), 256GB RAM (16 x 16GB DDR4-2133 ECC Registered 2R 1.2V DIMMs) operating at 1866 MT/s Max, and 28TB of local RAIDed disk storage) and two SuperMicro Rackform U628 servers (each with 2 x Intel Xeon E5-2680v4, 2.4 GHz (14-Core, HT, 35MB Cache, 120W), 256GB RAM (8 x 32GB DDR4-2400 ECC Registered 2R 1.2V LRDIMMs) operating at 2400 MT/s Max, and 28TB of local RAIDed disk storage) are individually and jointly clustered using Sun Grid Engine for a potential 224-core computing cluster. The SuperMicro cluster nodes are running the newest version of image processing software on a standardized Debian 8 operating environment, and are networked to each other, and to the campus network, through a 10Gb Juniper switch. These servers were added in 2017 to reduce computation times and complex analyses.
  • IBIC has a virtual desktop interface (VDI) server system implementing virtualization of an interoperable image processing environment (IVAN: Interoperable and Virtualized Analysis for Neuroimaging).
  • Eight HP dual Quad-core Xeon Z800 workstations (three with Intel® Xeon® E5530 2.40 GHz 8MB/1066 QC CPUs, five with Intel® Xeon® E5630 2.53 GHz 12MB/1066 QC CPUs) each with 24Gb RAM, 1.5 TB of local hard disk storage, and NVidia Quadro FX3800 graphics, are clustered with Sun Grid Engine as a 64-core computing cluster.
  • One additional HP dual Quad-core Xeon Z800 workstation (Intel® Xeon® E5630 2.53 GHz 12MB/1066 QC CPUs) with 72Gb RAM, 9.0 TB hard disk space, NVidia Quadro FX3800 graphics, is dedicated to internal development and memory-intensive processing. All resources are networked with 1 Gb Ethernet, with 10 Gb bandwidth connectivity to two Network Attached Storage (NAS) systems through a dedicated 24 port DLink switch.
  • One final HP dual Quad-core Xeon Z800 workstation (Intel® Xeon® E5630 2.53 GHz 12MB/1066 QC CPU) with 24Gb RAM, 1.5 TB of local hard disk storage, NVidia Quadro FX3800 graphics, is used for development.
  • Two SunFire X4170 workstations (each with Intel Xeon X5570, 2.93GHz 8-core and 8GB RAM), one SunFire X4170 workstations (with Intel Xeon X5570, 2.93GHz 16-core and 24GB RAM), as well as three SunFire X4270 workstations (each with Intel Xeon X5570, 2.93GHz 16-core and 48GB RAM) provide reconfigurable processing environments for classroom teaching and a potential 80-core computing cluster.
  • A Dell PowerEdge T710 (Intel Xeon X5647, 2.93GHz, 16 core and 48GB RAM) is configured for its own 16-core SGE cluster. The Dell PowerEdge has 10TB of local hard disk storage, as well as being the data server for 20TB of Human Connectome Project data.
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University of Washington • Center on Human Development and Disability Box 357920 • Seattle WA 98195-7920 USA • 206-543-7701 • chdd@uw.edu