Image registration - finding co-ordinates

[Miss Chatti]

Hi, 

Anyone have any ideas how to perform the following on CERR: 

For a male pelvic prostate , pelvic CT scan.

perform a rigid registration that includes the possibility of a rotation for two data sets.

 Find at least four bony landmarks that will be readily identifiable to act as fiducials and note down their coordinates. (Bones in the pelvic region)

 mark the centre of the prostate.  

The issue that I am currently having is that I cant view any structures in the legend bar. 

Thanks 

[ap...@mskcc.org]

1. Rigid registration: You can register images rigidly from Scan à Image fusion.  It can include rotation as well.
2. Landmark locations: Type scan in command box, left-click and drag the mouse over scan. You will see scan x,y,z coordinates and intensity at the bottom of the GUI.
3. Center of prostate: Here is code is obtain isocenter of a structure.

structNum = 1;

[xc,yc,zc] = calcIsocenter(structNum)

4. Structure legend: Only structure currently visible on any of the views are shown in legend window. Can you check whether they are turned on and available on the slices you are currently viewing.

 

Also, I just pushed a few updates to GitHub to fix GUI bugs for image fusion mode related to windowing and rotation. Please pull the latest code to get those changes.

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[Miss Chatti]

Hi, 

Thank you for your help. 

I'm not sure if I should be using GUI as it says:

  http://isbweb.org/software/movanal/kinemat/ 

 The format of the data required is [ax1 ay1 az1 ax2 ay2 az2 ax3 ay3 az3 …; bx1 by1 bz1 bx2 by2 bz2 bx3 by3 bz3 …] where a and b are points from the two difference modalities. With 4 data points it is possible to form a general 4x4 affine transform to represent a translation, t, and a rotation, R. The matrix equation can be easily solved to determine t and R in Matlab. [R t] a1 = b1; [R t] a2 = b2; [R t] a3 = b3; [R t] a4 = b4; where a1, b1, … are vectors describing the fiducials. To determine the 4x4 affine transform matrix, it is necessary to pad the two matrices with 1s on the bottom line. [R t ; 0 0 0 1] [a1 a2 a3 a4 ; 1 1 1 1] = [b1 b2 b3 b4 ; 1 1 1 1] The equation has the form MA = B, therefore M = B/A, which is an operation that is acceptable in Matlab. 

The structures   are not turned off I just can't see that any have been defined in both of the CT A CB-CT scans that I currently have to work on. 

Any idea how to code on the  soder.m file to find the data points? 

Thank you. 

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