How to extract 3D patches from only region within the brain and not include the background

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Tolentee
Tolentee am 24 Feb. 2016
Kommentiert: Image Analyst am 1 Jul. 2017
I have a 3-D MRI image of the brain. Some part of the image is the background which I don't need since I want to extract patches from only the region with the brain tissue. Is there a way to limit my patch extraction to the brain region without extracting from the surrounding black background.
  2 Kommentare
Santiago Silva
Santiago Silva am 30 Jun. 2017
When you say extract the region, do you mean the size of the block extraction? or how to extract a region (with a mask, e.g.).
Image Analyst
Image Analyst am 1 Jul. 2017
How are you extracting? By thresholding? Then why would any of the black surrounding stuff (air) be extracted???

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