Daniel Markel

Sorry the first part of the comment was cut off.

The label can be anything you want, it's just what the program will call the data set after you load it in. All I recommend is not using the words 'temp' or 'deform' in the title.

Put the data files into any folder on your computer, you'll be able asked to select it once you're adding an image dataset. I wouldn't mess around with the 'patient files' folder. the program will manage it on it's own.

I should add, there's a bit of an order to using the GUI, I apologize there's no manual yet.

1. 'create new patient' or load an exisiting one first.
2. Now you can add images to you're patients file it's expected that they are 3D volumes and all images pertaining to it are in the same folder.
3. Once the data is in the program you can select it in the list and click 'View data' to see it or you can select 'load contours' to load in any ROI's that accompanied the data set, they should also be in the dicom or RTOG files (this is optional).
4. Click 'Feature points' to mark any fudicials between data sets. The points are colour coded on the screen to correspond to the first or second image. The fade slider goes from 'image1 ---> image2'. (This is also optional)
5. In the pull down menu in the main program you can select 'Registration Parameters' to change the optimization parameters to get a better or faster registration.
5. Click register points to set up a single or series or registrations. If there are no contours you can select 'auto segment' in the registration menu to have the program use thresholding to segment the images. Once you're ready hit 'Register' and leave the program until it's finished, this may take a while.
6. Once done, the registration parameters will appear in the 'Deform' menu (purple button). You select the data set you're applying the transformation to on the left and the transformation on the right. Hit 'Apply deformation' to produce a data set of the deformed volume (remember you can only output in dicom for now). 'Load dose' to load a dose volume to accompany the data set. Or 'Calculate DVH' to apply the transformation to a dose set and produce an excel file with the DVH data.

Sorry for the delay, that's not a bad idea. Here's an RTOG of a phantom, you have to unzip it first, first file 0%0000 is the header. I have gotten rid of almost all the bugs now, I'll try to upload the fixed version tommorrow.

http://rapidshare.com/files/231809097/example.zip

can i use this free form deformation code to deform a human body template model to an individual human by having 2 contour images one for the template and the other for the target if yes ,which files or functions can i use if no ,have you any background about how i can do that?
please reply as soon as possible it is an important issue thank you