Software - Preprocessing

Tool Description Sample Applications
T1 Skullstrip
  • Automatically strip the skull from T1 images using histogram characteristics to determine brain tissue boundaries and watershed algorithm to fill them in.
  • Minor user interaction may be required to remove small areas afterwards.
  • All studies in which T1 images are analyzed.
PD/T2 Skullstrip
  • Strip the skull from double spin echo images (PD and T2) with user interaction to designate brain region of 2D PD/T2 voxel intensity histogram.
  • Semi automated skull removal for thicker-sliced double spin echo images.
sliceAligner
  • Routine for aligning slices in images having “dancing brain effect” of interleaved misaligned slices.
  • Flair images often have this effect.
  • Repair prior to further image processing.

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