Difference between revisions of "Slicer3: Image Guided Therapy (IGT)"

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= Goals =
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= Introduction =
  
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The Slicer3 IGT tools will support a number of medical tracking systems, navigation of medical procedures and even technical dissemination.
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The Slicer3 IGT tools are intended to enable research in image guided therapy. They leverage the Slicer environment and augment it with a number of IGT specific functionalities and modules. One key element of this capability is Open IGT link, a communication protocol to link 3D Slicer to a variety of devices.
  
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= Features =
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<br>
  
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Currently envisioned features include:
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=Getting Started With Navigation:=
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*http://www.na-mic.org/Wiki/index.php/IGT:ToolKit
  
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* Support medical tracking systems
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=Use-case scenario 1: Neurosurgical navigation=
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** Flashpoint (Image Guided Technologies, Boulder, CO)
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*I am a neurosurgeon who is using the BrainLabs Navigation system. I would like to use Slicer to do some research in DTI visualization during procedures. What do I do?
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** Robin Medical
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**[[Slicer3:BrainLab_Integration|The integration of BrainLab, BioImage Suite and Slicer3]]
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** Use OpenTracker
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<br>
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** Extend OpenTracker for new systems
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=Use-case scenario 2: IGT robotics tutorial with LEGO Mindstorms=
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*I am a professor who wants to use Slicer to educate my students about the basics of robotics in IGT
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<!--*Danielle Pace will list here the steps needed to do this and will provide links to the current pages with in-depth documentation-->
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==Overview==
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This tutorial  provides a thorough understanding of the main concepts in image-guided therapy and medical robotics, namely imaging, pre-operative planning, targeting by tracking, navigation and registration.  The tutorial is open-source and completely free for anyone to use or modify (see http://www.slicer.org for details and for the BSD style open source license).
 +
 
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The tutorial is:
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* Hands-on:  Using a LEGO robot, a LEGO phantom (anatomical model) and a tutorial module in 3D Slicer v. 3 means that tutorial participants can use real physical equipment and software to learn about IGT and medical robotics.
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* Accessible:  The tutorial software is open-source, and the cost of the materials is approximately $300 USD + shipping and taxes.
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==Materials==
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*Provided by NA-MIC and the Surgical Planning Lab:
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** 3D Slicer (download from [http://www.slicer.org/pages/Downloads Download page])
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** 3D Slicer LEGO tutorial module (available at [http://www.na-mic.org/ViewVC/index.cgi/trunk/LegoTutorial/?root=NAMICSandBox NA-MIC SandBox Subversion Repositiory])
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** CT volume of the phantom (download [http://wiki.na-mic.org/Wiki/images/6/69/000003.SER.zip 000003.SER.zip])
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*Provided by tutorial participants:
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** 1 LEGO Mindstorms NXT kit (Available at [http://shop.lego.com/ByTheme/Product.aspx?p=8527&cn=17&d=70 LEGO Shop])
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** 1 LEGO Deluxe Brick box (Available at [http://shop.lego.com/ByTheme/Product.aspx?p=6167&cn=306&d=362 LEGO Shop])
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** 2 pom-poms
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** Linux computer with root access or Windows with administrator privileges
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(For purchasing information for user-supplied materials, see the "Tutorial Slides Part 1 - Background and Materials" slides.)
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==Steps==
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'''STEP 1:''' Assemble Robot (See [http://wiki.na-mic.org/Wiki/images/8/81/LEGOIGTAndMedicalRoboticsTutorial_RobotAssemblyInstructions.pdf Robot assembly instruction])
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'''STEP 2:''' Assemble Phantom  (See [http://wiki.na-mic.org/Wiki/images/0/0d/LEGOIGTAndMedicalRoboticsTutorial_PhantomAssemblyInstructions.pdf  Phantom assembly instruction])
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'''STEP 3:''' Place phantom (See [http://wiki.na-mic.org/Wiki/images/6/64/LEGOIGTAndMedicalRoboticsTutorial_PhantomPlacementGuide.pdf Phantom assembly instruction])
  
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* Used as an intraoperative navigation system
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For more information, please refer the tutorial slide materials listed bellow.
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** Medical procedures
 
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*** Image-guided neurosurgery
 
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*** Image-guided brain biospy
 
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*** Image-guided prostate biopsy
 
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*** Image-guided prostate brachytherapy
 
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*** Image-guided brain thermal ablation
 
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** Modules and servers
 
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*** Locator module
 
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*** ProstateBiopsy module
 
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*** ProstateBrachy module
 
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*** Ablation module
 
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*** MRT server
 
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*** DICOM listener for image transfer
 
  
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* Technical dissemination
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==Tutorial slides and references==
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** [[IGT-Tutorials|IGT Tutorial Materials]]
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* Tutorial Slides Part 1 - Background and Materials:  [http://wiki.na-mic.org/Wiki/images/d/d1/LEGOIGTAndMedicalRoboticsTutorial_1_BackgroundAndMaterials.pdf LEGOIGTAndMedicalRoboticsTutorial_1_BackgroundAndMaterials.pdf]
  
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= Implementation Options =
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* Tutorial Slides Part 2 - Basic Tutorial:  [http://wiki.na-mic.org/Wiki/images/a/ab/LEGOIGTAndMedicalRoboticsTutorial_2_BasicTutorial.pdf LEGOIGTAndMedicalRoboticsTutorial_2_BasicTutorial.pdf]
  
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* Use CMake for building process
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* Tutorial Slides Part 3 - Advanced Tutorial:  [http://wiki.na-mic.org/Wiki/images/f/f4/LEGOIGTAndMedicalRoboticsTutorial_3_AdvancedTutorial.pdf LEGOIGTAndMedicalRoboticsTutorial_3_AdvancedTutorial.pdf]
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* Use KWWidgets to create module interface
 
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* Existing VTK or ITK code can be applied directly
 
  
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= Plan =
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* MICCAI 2007 "Open Source and Open Data for MICCAI" workshop paper:  [http://wiki.na-mic.org/Wiki/index.php/Media:AnAccessibleHandsOnTutorialSystemForIGTAndMedicalRobotics.pdf AnAccessibleHandsOnTutorialSystemForIGTAndMedicalRobotics.pdf]
  
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* Before NA-MIC AHM 2007 (Jan 10-11-12)
 
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** On Windows XP, download SPLOT and related packages (e.g. ACE, xerces, OpenTracker) and compile them as libraries
 
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** Modify CMake files in Slicer3 to link Slicer3 to the above libraries
 
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** Translate Locator module from Slicer2.6 to Slicer3
 
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** Try to make Slicer3 a demo intraoperative navigation system with Aurora tracking system for image-guided neurosurgery
 
  
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* After NA-MIC AHM 2007
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<br>
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** Automate the building process of SPLOT
 
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** Incorporate SPLOT into the Slicer3 build process
 
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** Translate other IGT modules from Slicer2.6 to Slicer3
 
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** Merge SIGN to Slicer3
 
  
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= In Progress Projects =
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= List of devices that have been linked successfully =
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*[[Tracker Daemon|Tracker Daemon]]
 
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*[[OpenIGTLink| Open IGT Link]]
 
  
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= Issues =
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* Support medical tracking systems
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* All devices interfaced to IGSTK (Noby inserts link), including
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** Flashpoint (Image Guided Technologies, Boulder, CO)
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** Robin Medical
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** scanners (Noby: which ones)
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** robots (Noby which ones)
  
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Automating the building process for external libraries is a challenge.
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* IGT Modules in Slicer 3.3
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Only what is in Slicer 3.3 nightly!

Latest revision as of 02:37, 27 November 2019

Home < Slicer3: Image Guided Therapy (IGT)

Introduction

The Slicer3 IGT tools are intended to enable research in image guided therapy. They leverage the Slicer environment and augment it with a number of IGT specific functionalities and modules. One key element of this capability is Open IGT link, a communication protocol to link 3D Slicer to a variety of devices.


Getting Started With Navigation:

Use-case scenario 1: Neurosurgical navigation


Use-case scenario 2: IGT robotics tutorial with LEGO Mindstorms

  • I am a professor who wants to use Slicer to educate my students about the basics of robotics in IGT

Overview

This tutorial provides a thorough understanding of the main concepts in image-guided therapy and medical robotics, namely imaging, pre-operative planning, targeting by tracking, navigation and registration. The tutorial is open-source and completely free for anyone to use or modify (see http://www.slicer.org for details and for the BSD style open source license).

The tutorial is:

  • Hands-on: Using a LEGO robot, a LEGO phantom (anatomical model) and a tutorial module in 3D Slicer v. 3 means that tutorial participants can use real physical equipment and software to learn about IGT and medical robotics.
  • Accessible: The tutorial software is open-source, and the cost of the materials is approximately $300 USD + shipping and taxes.

Materials

  • Provided by tutorial participants:
    • 1 LEGO Mindstorms NXT kit (Available at LEGO Shop)
    • 1 LEGO Deluxe Brick box (Available at LEGO Shop)
    • 2 pom-poms
    • Linux computer with root access or Windows with administrator privileges

(For purchasing information for user-supplied materials, see the "Tutorial Slides Part 1 - Background and Materials" slides.)

Steps

STEP 1: Assemble Robot (See Robot assembly instruction)

STEP 2: Assemble Phantom (See Phantom assembly instruction)

STEP 3: Place phantom (See Phantom assembly instruction)

For more information, please refer the tutorial slide materials listed bellow.

Tutorial slides and references



List of devices that have been linked successfully

  • Support medical tracking systems
  • All devices interfaced to IGSTK (Noby inserts link), including
    • Flashpoint (Image Guided Technologies, Boulder, CO)
    • Robin Medical
    • scanners (Noby: which ones)
    • robots (Noby which ones)
  • IGT Modules in Slicer 3.3

Only what is in Slicer 3.3 nightly!

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