Difference between revisions of "2013 Project Week:WebbasedAnatomicalTeachingFramework"
From NAMIC Wiki
m (Text replacement - "http://www.slicer.org/slicerWiki/index.php/" to "https://www.slicer.org/wiki/") |
|||
| (15 intermediate revisions by 2 users not shown) | |||
| Line 2: | Line 2: | ||
<gallery> | <gallery> | ||
Image:PW-SLC2013.png|[[2013_Winter_Project_Week#Projects|Projects List]] | Image:PW-SLC2013.png|[[2013_Winter_Project_Week#Projects|Projects List]] | ||
| + | Image:Mi2b2_1.png|Screenshot of the prototype | ||
| + | Image:Mi2b2_2.png|Screenshot of the prototype | ||
</gallery> | </gallery> | ||
| Line 16: | Line 18: | ||
<div style="width: 27%; float: left; padding-right: 3%;"> | <div style="width: 27%; float: left; padding-right: 3%;"> | ||
<h3>Objective</h3> | <h3>Objective</h3> | ||
| − | * One goal of the mi2b2 collaborative effort is to create a web-based teaching tool for fetal and neonatal anatomy as well as a browser for quantified information. The goal of this project is to create a prototype application for this purpose which can be easily extended to other testing scenarios. | + | * Over the last several years, an [[CTSC:ARRA_supplement | infrastructure has been developed to integrate health records and PACS image archives]] to support research on large collections of data collected during delivery of healthcare (as contrasted with data collected as part of clinical trials). This resulted in the availability of [http://www.mi2b2.org the mi2b2 system]. An application enabled by this technology is supported by an [http://projectreporter.nih.gov/project_info_description.cfm?aid=8272742&icde=13552329&ddparam=&ddvalue=&ddsub=&cr=1&csb=default&cs=ASC R01 to use clinical scans of children aged zero to six years old to build a teaching atlas]. |
| + | * One goal of the [http://www.mi2b2.org mi2b2] collaborative effort is to create a web-based teaching tool for fetal and neonatal anatomy as well as a browser for quantified information. The goal of this project is to create a prototype application for this purpose which can be easily extended to other testing scenarios. | ||
</div> | </div> | ||
<div style="width: 27%; float: left; padding-right: 3%;"> | <div style="width: 27%; float: left; padding-right: 3%;"> | ||
| Line 22: | Line 25: | ||
We propose the following steps to create a high-level didactic content creation tool. | We propose the following steps to create a high-level didactic content creation tool. | ||
* Enable switching between different testing scenarios (fetal brains, liver etc.) | * Enable switching between different testing scenarios (fetal brains, liver etc.) | ||
| − | * Start with the existing Liver tutorial dataset from the NA-MIC training core which includes a limited number of | + | * Start with the existing [https://www.slicer.org/wiki/Documentation/4.2/Training#Slicer4_3D_Visualization_of_DICOM_images_for_Radiology_Applications Liver tutorial dataset and slides] from the NA-MIC training core which includes a limited number of questions and answers |
* Load a visual scene linked to a question catalog from a defined file format (XML?) | * Load a visual scene linked to a question catalog from a defined file format (XML?) | ||
* The visualization and the questions are linked so answers can be provided in a fully interactive fashion (picking of a 3D mesh.. etc.) | * The visualization and the questions are linked so answers can be provided in a fully interactive fashion (picking of a 3D mesh.. etc.) | ||
| Line 28: | Line 31: | ||
* Use 3D Slicer to generate content for training and testing | * Use 3D Slicer to generate content for training and testing | ||
* Prototype will be built on top of existing visualization infrastructure ([http://goXTK.com XTK] and [http://fetalmri.org web-based fetal atlas tool]) | * Prototype will be built on top of existing visualization infrastructure ([http://goXTK.com XTK] and [http://fetalmri.org web-based fetal atlas tool]) | ||
| + | * We envision a system somewhat like existing online quiz systems ([http://www.surveymonkey.com], [http://www.classmarker.com/], [http://dontshake.org/lms/lms_information/lms_quiz.php], [http://www.proprofs.com/quiz-school/]) but with interactive 3D content drawn from the clinical use cases. | ||
| + | * May use a helper library like [https://github.com/jewlofthelotus/SlickQuiz SlickQuiz] [http://www.jewlofthelotus.com/2011/12/23/slickquiz-jquery-plugin-now-on-github/comment-page-1/] | ||
</div> | </div> | ||
<div style="width: 27%; float: left; padding-right: 3%;"> | <div style="width: 27%; float: left; padding-right: 3%;"> | ||
<h3>Progress</h3> | <h3>Progress</h3> | ||
* User interface mockups are being prepared | * User interface mockups are being prepared | ||
| + | * Development repository: https://github.com/FNNDSC/mi2b2_aim3 | ||
| + | * Problems/ToDo: | ||
| + | ** <strike>Update WebGLExport module to new XTK version</strike> | ||
| + | ** <strike>Fix XTK with Liver CT volume (right now scalar range messes things up) or convert (normalize) the volume</strike> | ||
| + | * First working prototype is online! | ||
| + | ** http://fnndsc.github.com/mi2b2_aim3/ | ||
| + | |||
</div> | </div> | ||
</div> | </div> | ||
| + | |||
| + | == Draft Development Plans == | ||
| + | |||
| + | === Phase I: Developer Mockups === | ||
| + | During the first half of 2013: | ||
| + | * Hand-coded (html, javascript) mockups using to create content from existing content | ||
| + | ** Liver tutorial from Sonia | ||
| + | ** Fetal brain atlas | ||
| + | * Identify best practices and experiment with different Question and Answer modes | ||
| + | * Identify best practices and experiment with user interaction | ||
| + | * Getting feedback on mi2b2 team and refining the mockups | ||
| + | |||
| + | === Phase II: Limited Beta === | ||
| + | During second half of 2013: | ||
| + | * Identify first set of training content suitable for wider trial | ||
| + | * Set up a site to host training materials | ||
| + | ** Set up back end system to record test results? | ||
| + | ** Review [http://en.wikipedia.org/wiki/Redcap_(Research_Electronic_Data_Capture) RedCap] as a back end ([http://www.project-redcap.org/ home page], [https://redcap.vanderbilt.edu/surveys/index.php?hash=40008b9a5380fcacce3976bf7c08af5b example survey)] | ||
| + | ** Consider tie-in to RSNA Audience Response Tool | ||
| + | * Open site to radiology trainees and gather feedback | ||
| + | * Integrate infant brain atlas data as it becomes available | ||
| + | |||
| + | === Phase III: Authoring Tools === | ||
| + | During 2014: | ||
| + | * Develop system for clinician-educators to easily create content | ||
| + | ** Define images, models, annotations, atlases to display | ||
| + | ** Define didactic material | ||
| + | ** Export content to hosting site | ||
| + | * Leverage tools like Scene Views and WebGL Export from Slicer | ||
Latest revision as of 18:01, 10 July 2017
Home < 2013 Project Week:WebbasedAnatomicalTeachingFramework
Screenshot of the prototype
Screenshot of the prototype
Key Investigators
- Daniel Haehn, Rudolph Pienaar, Ellen Grant (Boston Children's Hospital)
- Steve Pieper (Isomics Inc.)
- Sonia Pujol (BWH)
- Randy Gollub (MGH)
Project Description
Objective
- Over the last several years, an infrastructure has been developed to integrate health records and PACS image archives to support research on large collections of data collected during delivery of healthcare (as contrasted with data collected as part of clinical trials). This resulted in the availability of the mi2b2 system. An application enabled by this technology is supported by an R01 to use clinical scans of children aged zero to six years old to build a teaching atlas.
- One goal of the mi2b2 collaborative effort is to create a web-based teaching tool for fetal and neonatal anatomy as well as a browser for quantified information. The goal of this project is to create a prototype application for this purpose which can be easily extended to other testing scenarios.
Approach, Plan
We propose the following steps to create a high-level didactic content creation tool.
- Enable switching between different testing scenarios (fetal brains, liver etc.)
- Start with the existing Liver tutorial dataset and slides from the NA-MIC training core which includes a limited number of questions and answers
- Load a visual scene linked to a question catalog from a defined file format (XML?)
- The visualization and the questions are linked so answers can be provided in a fully interactive fashion (picking of a 3D mesh.. etc.)
- Track user-specified answers and provide statistics after testing mode
- Use 3D Slicer to generate content for training and testing
- Prototype will be built on top of existing visualization infrastructure (XTK and web-based fetal atlas tool)
- We envision a system somewhat like existing online quiz systems ([1], [2], [3], [4]) but with interactive 3D content drawn from the clinical use cases.
- May use a helper library like SlickQuiz [5]
Progress
- User interface mockups are being prepared
- Development repository: https://github.com/FNNDSC/mi2b2_aim3
- Problems/ToDo:
Update WebGLExport module to new XTK versionFix XTK with Liver CT volume (right now scalar range messes things up) or convert (normalize) the volume
- First working prototype is online!
Draft Development Plans
Phase I: Developer Mockups
During the first half of 2013:
- Hand-coded (html, javascript) mockups using to create content from existing content
- Liver tutorial from Sonia
- Fetal brain atlas
- Identify best practices and experiment with different Question and Answer modes
- Identify best practices and experiment with user interaction
- Getting feedback on mi2b2 team and refining the mockups
Phase II: Limited Beta
During second half of 2013:
- Identify first set of training content suitable for wider trial
- Set up a site to host training materials
- Set up back end system to record test results?
- Review RedCap as a back end (home page, example survey)
- Consider tie-in to RSNA Audience Response Tool
- Open site to radiology trainees and gather feedback
- Integrate infant brain atlas data as it becomes available
Phase III: Authoring Tools
During 2014:
- Develop system for clinician-educators to easily create content
- Define images, models, annotations, atlases to display
- Define didactic material
- Export content to hosting site
- Leverage tools like Scene Views and WebGL Export from Slicer
