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Raw Image Read and Display

Key Investigators

• Attila Nagy (SZTE Medical School, Hungary)
• Csaba Pinter (Queen’s University, Canada)
• András Lassó (Queen’s University, Canada)
• Steve Pieper (Isomics Inc., Cambridge, MA, USA)
• Jean-Christophe Fillion-Robin (KitWare Inc., Chapel Hill, North Carolina, USA)
• whoever wants to join/has ideas/has some time… :)

Project Description

Sometimes unknown file formats are encountered that contain images. There are free tools to handle these (eg. try to guess the bit depth, X and Y resolution, etc) but it is currently not possible from within Slicer.

Objective

1. Set basic image read parameters (bytes to skip (header), bitness, etc)
2. Display the loaded image in 3D view

Approach and Plan

1. Add some more functionality.
2. Add ideas so they can be implemented later.

Progress

All basic image parameters can be set:

• header to skip
• endianness
• X, Y and Z dimensions
• image bit depth/pixel type

Next Steps:

• set automaic thresholding
• automatically update the image in the viewer
• display it in the 3D viewer
• calculate cross-correlation between lines of image to make the guessing easier

Illustrations

This is how the moddule looks as of 2019. 02. 01.

Background and References

[Something along these lines (though the thread is old, the problem surfaced a few times since then)] (http://slicer-devel-archive.65872.n3.nabble.com/CBCT-td4031606.html)

• Source code: https://github.com/acetylsalicyl/SlicerRawImageGuess
• Documentation: In progress
• Test data:
  • Available in the github repository
  • 3D ultrasound from Slicer forum: download from dropbox