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Isomics

Isomics. Steve Pieper, Ph.D. Slicer3. Slicer3 Infrastructure MRML, IO, 3D Viewer, Slice Viewers, Transforms, Diffusion Volumes, Fiber Bundles… Build / Test / Deployment Project Coordination Slicer3 Modules Tractography Label Editor. Progress in 2007.

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Isomics

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  1. Isomics Steve Pieper, Ph.D.

  2. Slicer3 • Slicer3 Infrastructure • MRML, IO, 3D Viewer, Slice Viewers, Transforms, Diffusion Volumes, Fiber Bundles… • Build / Test / Deployment • Project Coordination • Slicer3 Modules • Tractography • Label Editor

  3. Progress in 2007 *: find . -iname \*.h -o -iname \*.cxx -o -iname \*.tcl -o -iname \*.java -o -name \*.py | grep -v svn | xargs wc †: svn log | grep "^r" | cut -d " " -f 3 | sort | uniq | wc • Numbers • Subversion Commits: 3,407 • Lines of Code*: 371,428 • Bugs & Features: • 154 Submitted • 63 Closed • Active Developers†: 33

  4. BIRN Collaboration Informatics Infrastructure XCEDE: XML clinical experiment description format XNAT Interface XCEDE Web Services Analysis and Visualization Freesurfer Interoperability (Aucoin) DTI Calibration / Atlases fMRI Overlays Population Statistics (QDEC - Aucoin, Greve) Query Atlas (Plesniak)

  5. NITRC Collaboration Neuroinformatics Tools and Resources Clearinghouse ~1 year old NIH funded effort Based on gforge NA-MIC was Awarded Supplement to work with NITRC Funds are being used to support Slicer3 Modularity Project (Lorber, Yarmarkovich) Slicer3 Modules will be hosted as projects on NITRC Development includes automated GUI module discovery and build from distributed repositories

  6. NCIGT Collaboration National Center for Image Guided Therapy - Jolesz, BWH Shared Goals with Queens/JHU DBP Common Open Infrastructure Access to NA-MIC Algorithms Real-Time Performance Targets Collaboration also with JHU ERC, Cleary IGSTK R01, and MGH CIGL and others OpenIGTLink Connection

  7. NAC Collaboration Neuroimage Analysis Center (Kikinis, BWH) P41 Renewed 2008-2013 Wells, Westin, Pieper, Talos, Halle Will continue to do slicer development as part of the community Emphasis on fMRI statistics, dMRI analysis, anatomy General time series analysis tools Plesniak, Meier, Blezek Images: O’Donnell

  8. U Iowa Meshing Project VTK/KWWidgets based Mesh Quality Viewer (Lisle) Migration of Stand Alone Meshing Tool into Slicer Module (Lisle) Key Driver for 3D Widgets in Slicer3

  9. Pending Proposals Harvard/Indiana/GE/Isomics Shenton/Saykin/Westin (PIs), Miller, Pieper fMRI/dMRI/sMRI Networks in Schizophrenia Scored, resubmitting January 17 OSU/Kitware/Isomics Majarachu (PI), Aylward, Davis, Pieper microSlicer3: segmentation tools for microscope images Scored, resubmitting January 17 MGH/Harvard/Isomics Sharp/Chen (PIs), Plesniak, Pieper Semi-Automated Segmentation for Raditation Treatment Planning In Preparation Hopkins/Harvard/UWash/Isomics Kikinis/Miller (PIs), Plesniak, Talos, Halle, Pieper CardioVascular Image Informatics / Query Atlas First submit January 17

  10. Plans for 2008 Slicer3 Modularity, Performance, Debugging Diffusion Modules Editor XNAT/BatchMake/Grid Lupus DBP Workflow

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