title: Medical Image Segmentation
body: <p>I'm looking for a segmentation algorithm to extract the middle part of the mouse spine from MRI image shown below. I thought about extracting the part by thresholding intensity but the intensity is too similar to other parts in the image. I was also told (by my supervisor) to look into semi-automated segmentation algorithms where you would click on a pixel in the region of interest and the algorithm would consider pixels spreading from the one you clicked. Any additional advice on this would also be appreciated. </p>
  
  <p>I'm new to this field so a simple explanation and/or links to additional resources are welcome. </p>
  
  <p>MRI image of mouse spine:</p>
  
  <p><img src="https://i.stack.imgur.com/7I98j.png" alt="img"></p>
  
  <p>Same as above with highlighted region that needs to be segmented:</p>
  
  <p><img src="https://i.stack.imgur.com/QZlrG.png" alt="img"></p>
  
  <p>P.S. - I'm working in matlab so if you know of a good toolbox, please let me know. </p>
  
  <p>My background:
  Undergrad in Physics, starting Medical Physics MSc, and trying to get into image analysis / computer vision.</p>