Getting Started with ITK

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Open Source Software in Image Guided Surgery
and New Age of Publishing
Luis Ibáñez KITWARE, Inc.
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IGSTKThe Image Guided Surgery Toolkit
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Open Source

• BSD License
• www.igstk.org
• Software Development Process

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IGSTKSoftware Process
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IGSTK Team
Georgetown University
Atamai Canada
PI
UNC Chapel Hill
Kitware
STTR NIH Primary
Subcontracts
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Design - Implementation Process
Surgical Procedure
Wiki Page Requirements
Code Reviews
Workflow Analysis
Wiki Page Design
CVS Commit
Factorizing Components
Sandbox Version
Maintenance
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Traceability FDA Process
CVS Commits Logs
Bug Tracking Database
Requirements
Bugs
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Team Coordination
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Design Discussions - Wiki
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Requirements - Wiki
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Agile yet Strict
Developers Discussions Tcon, IM, Mailing List,
Wiki
Wiki Proposals
Code Reviews
CVS Main
CVS Sandbox
Bug Reports
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Code Reviews - Wiki
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Bugs - CVS Commits linkage
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Bugs - CVS Commits linkage
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Interaction of Multiple Components

• Images
• Geometrical Objects
• Graphical Representation
• Visualization
• Tracking

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General Interactions
Tracker
GUI
TrackerTool 1
View1
TrackerTool 2
TrackerTool 3
View2
View3
Object Representation
Spatial Object
View4
Object Representation
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Timing Controls
Scene (view1,repr7) (view3,repr9) (view3,repr9) (v
iew3,repr9)
Tracker
Tick
GUI
Tick
TrackerTool 1
View1
TrackerTool 2
TrackerTool 3
View2
View3
Object Representation
Spatial Object
View4
Object Representation
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IGSTK
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The Insight Journal
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Success Story

• 2002-2003

• C. R. Maurer, Jr., R. Qi, and V. Raghavan
• "A Linear Time Algorithm for Computing Exact
  Euclidean Distance Transforms of Binary Images
  in Arbitrary Dimensions
• IEEE - Transactions on Pattern Analysis and
  Machine Intelligence
• 25(2) 265-270, 2003

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Success Story

• 2006
• University of Iowa
• Hans Johnson Vamsi Jammalamadaka
• Atlas-Based Segmentation
• Bottle neck Distance map computation
• Future work try Maurers published method

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Success Story

• February 17 2006
• 926 email about new Insight Journal submission
• 1230 print and read documentation while
• 1245 download source code, replace method in
  their application and compile it
• 1300 run on one dataset

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Success Story

• February 17 2006
• 1303 curse because it could not have possible
  be computed in only 3 minutes
• 1310 Compare with previous results Do dance of
  joy because new results are nearly the same as
  the old ones
• 1600 Write an Insight Journal review

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The Insight Journal

• Technical work must be reproducible
• Papers should be publicly accessible
• Fully Electronic publishing
• Not limited to ITK
• Brought to you by ISC

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The Insight Journal

• Reproducibility requires sharing
• Source code
• Images
• Parameters
• Open source
• Existing algorithms provide services
• New algorithms should be made available to others

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Image Processing Method
Parameters
Algorithm
InputImage(s)
OutputImage(s)
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Submission for the IJ
PDF doc
Journal Repository
Code
Input Data
Author
Web Site
Build Machines
Results Data
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Process Flow
DSpace
Automatic Testing Environment
Sends Code
StoresProject
Insight Journal Manager
Submits Project
Submits Entry
Author
Posts Results
Reviews Project
Dashboard
Reviewer
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Benefits of the Insight Journal

• Allows sharing your Source Code
• Faster and larger impact on the community
• Immediate feedback from Readers and Reviewers
• Open Dialog / Forum
• No Limitations
• No page limitations
• No limit or charges for color figures
• Accepting additional electronic material

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Benefits of the Insight Journal

• Indexed by Google
• Post revisions of papers and code
• Richer readers experience
• Source code available
• Original parameters and images available
• Reader can try on their own data
• Accepts practical contributions
• complimentary to full Journal Papers

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Benefits of the Insight Journal

• No Time Constraints
• Continuous submission process
• Continuous peer-review
• Continuous submission of revision (paper/code)
• Thanks to not using Paper !

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http//www.Insight-Journal.org
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• Comparison of output images
• Publicly available
• Tests for non-trivial images
• Reviewers and readers can use it as a first
  view of the paper.

Results Verification
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The Insight Journal
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