[Insight-users] Registration of one sub-brain to full-brain

[Karthik Krishnan]

On Fri, Oct 22, 2010 at 12:58 AM, Erik Türke <tuerke at cbs.mpg.de> wrote:

>  Am 21.10.2010 19:17, schrieb Torsten Rohlfing:
>
> Hi guys -
>
> This is more of a question than a suggestion: does ITK currently support
> "pixel padding"? That is, can we currently define a value in the image data
> that serves as a marker for pixels that aren't really there? Think of it as
> a binary mask coded into the image itself.
>
>
> Well i think extracting a region of interest which should be considered
> during the registration is possible by passing a mask to the image metric.
> So the challenge is to define this mask automatically. I am first thinking
> of an Otsu filter to define such a mask.
> A second possibility would be to use the "
> SetUseFixedImageSamplesIntensityThreshold<http://www.itk.org/Doxygen318/html/classitk_1_1ImageToImageMetric.html#ae56734d7cc4bb45a6ba462e56f260546>"
> method or
>


On that note, it appears that the Mattes metric in Review/ does not use this
threshold when computing the bin size in its Initialize() method. There'd be
a lot of bins in the joint histogram wasted needlessly.

Secondly its nice to have a pixel padding value option in the fixed/moving
images. CT scans have with this value outside the gantry; typical values of
~32768. The above method would suffice for these scans, but its going to
throw the binning off.

thx
--
karthik
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