2009 Summer Project Week 4D Imaging

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  Project Week Main Page

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  Screen shot of 4D Analysis Module

Key Investigators

• BWH: Junichi Tokuda, Wendy Plesniak, Nobuhiko Hata
• WFU:Craig A. Hamilton

Objective

Implement a set of 3D Slicer modules to handle 4D images in 3D Slicer for perfusion analysis, cardiac, etc. including:

• Manipulation
  • Loading 4D volume
  • Scroll time-line
  • Edit frames
  • Recording 4D Gated US
• Processing
  • Image registration for motion compensation
• Analysis
  • Perfusion analysis: fitting pharmacokinetic model

Approach, Plan

We will work on the following tasks:

• Implementation of 4D Image module that provides:
  • 4D image loading: Loading a series of 3D images from a specified director. The data can be either in DICOM or NRRD format.
  • Time line scroll-bar interface: scrolling the frame in time-direction. It allows you to scroll the frame for foreground and background screens independently to compare two images at the different time points.
  • Frame editing: Reorganizing the time series data (optional)
• Implementation of 4D Analysis module that provides:
  • Intensity plot: Plotting temporal changes of intensities at specified regions. This feature is useful for analyzing dynamic contrast images.
  • Model fitting: A python interface to analyze intensity curves obtained from the 4D images. The interface is useful to fit pharmacokinetic models to intensity curves to obtain perfusion parameters.
• Investigating BatchMake as an infrastructure for time-series image processing.
  • 4D Cropping: Cropping volumes in a time-series data using BatchMake.
  • 4D Image registration: Registering each volume frame to a key-frame to compensate organ motion.
  • Image registration using cluster (Optional)

Progress

Before the project week, we have completed:

• Initial implementation of 4D Image module. The module is available at http://svn.slicer.org/Slicer3/trunk/Modules/FourDImage
• Initial implementation of 4D Analysis module. The Python interface has to be fixed. The module is available at http://svn.slicer.org/Slicer3/trunk/Modules/FourDImage

References

The preliminary module implementation is described in Slicer3:FourDAnalysis.