Hi everyone - I’m very new to 3D Slicer and had a question about coregistration. We have 3D T2* maps of menisci which I want to coregister and come up with a 3D T2* map that is the average of all the individual 3D T2* maps of all the menisci we have. I have been playing around a bit in 3D Slicer with just two as a test run but having used Elastix and General (BRAINS) registration both it seems that once I register the moving volume to the fixed one, the color of the registered image in volume rendering seems to be pretty different (which I assume means it affects intensities of the T2* mapping). So I’m here wondering what the best way to go about this would be or am I on the right track and not to worry?
Let me know if I’m not making sense coz like I said I’m pretty new to all this. Thank you all in advance!
can you post a picture?
Slicer can def do what you described: register and average.
It is probably just the colormap.
Are they well aligned?
Hi, thanks for your response! Posting pictures below:
So I summed the original fixed volume with the registered moving volume using the AddImageFilter and then the sum volume I got I averaged using the ShiftScaleImageFilter by setting the scale to 0.5 (both filters from the Simple Filters module).
Also originally the moving volume was not well aligned with the fixed volume so I transformed it to align them as close together as possible before registering.
Let me know if this was the right approach or a better way to do it and if it is the right approach, how do I verify from something other than the colors in the image that I did the right thing.
Hope all this makes sense and thanks again!
looking for some input from someone on this. thank you!
