National Alliance for Medical Image Computing Slicer3 Status Update

National Alliance for Medical Image Computing Overview Where do we want to go? Where have we been? Where are we? What’s our plan? What’s underway?

National Alliance for Medical Image Computing Where do we want to go? June 9 8:30 – 5:00, Satellite Event to the Organization for Human Brain Mapping 2007 (Chicago) Diffusion MRI Neuroanatomy, MR Physics, Clinical Applications, Mathematics, Processing and Visualization Hands On Exercises with 3D Slicer 2.6 Outcome –Most Attendees Stayed Late for Q&A, Extra Demonstrations –100% reported they would recommend the workshop to others –50% are planning to apply the tools and information they learned to their own work We want to migrate to these events to Slicer3 –New Algorithms –Cleaner Design 50 registered from 9 countries: USA, New Zealand, Canada, Netherlands, England, Germany, Korea, Czech Republic & Belgium 13 states within the US: Georgia, Utah, New York, Wisconsin, Hawaii, California, Oregon, Illinois, Ohio, Minnesota, Pennsylvania, Indiana & Michigan 40 different laboratories including 2 NIH institutes Fields of expertise representative of the NAMIC collaboration- basic and clinical neurosciences, physics, image processing and computer science

National Alliance for Medical Image Computing What other goals? Make the NA-MIC Kit indispensable for Medical Image researchers (e.g. DBP Users) –Install on your new computer like cygwin or firefox Powerful, Productive Platform for Developers Reliable, Usable, Documented…

National Alliance for Medical Image Computing What is Slicer3? Total Rework of 3D Slicer –At least 80% of code rewritten Draws on Distributed Developer Community –Kitware, Inc., GE Research, Isomics, Inc., BWH, UCLA, UCSD, UIowa, MIT, GaTech, UNC, U Utah, MGH, UCI, Harvard, WashU, JHU… –NAC, NCIGT, NA-MIC, mBIRN, fBIRN

National Alliance for Medical Image Computing Where have we been? First slicer3 discussions were held here 2 years ago –June 28, 2005 SVN Revision 1 16 months ago –Jan 26, 2006 –3672 commits as of June 24, 2007 About a dozen slicer3 1-2 day retreats –At SPL, MIT, Kitware…

National Alliance for Medical Image Computing Where are we? Development “ecosystem” –repository, dashboard, mailing lists, bug tracker, wiki… Slicer3 Betas –Base GUI, Slice/Model Interaction, Scene Load/Save, Volumes, Models, Transforms… –Basic Set of Modules for Registration, Filtering, Editor, Model Building… Application Modules –EMSegmenter, Diffusion Processing, Image Guided Therapy, Meshing, Microscopy…

National Alliance for Medical Image Computing What’s the plan? Working with DBPs to Apply Slicer3 Training Core Creating First Tutorials Slicer3 Release Schedule –To be determined at this meeting NA-MIC Renewal Needs –Application Publications with New Algorithms Implemented in NA-MIC Kit

National Alliance for Medical Image Computing What’s Underway? Lots! Algorithm Interfaces –Expanded Execution Model with MRML Scene I/O –Integrated scipy and matplotlib –SlicerDaemon Scalar/Vector/Tensor interface to MATLAB –Internal Modules for dMRI MRML –Diffusion Volumes, Fiber Bundles, Model Hierarchies, Scene Snapshots and Clips, Performance Optimization… GUI –Style Guidelines, Cine/FilmSheet Slice Displays, Icons, Module Interfaces, File Browser, Editor… Large Scale Computing –BatchMake, BIRN XNAT, QDEC Statistics… Application Areas –Neuro Segmentation, Lesion Analysis, Diffusion Imaging, Vascular Simulation, Prostate Interventions, Robotics, Neurosurgery, Astronomy, Microscopy, Radiology Review, Joint Biomechanics, Radiation Treatment Planning…