Thanks for leting me know that AFNI can do segmentation using 3dSeg. I was using FSL
I ran for the first time,3dSeg on one of my datasets. I observed that it creates a directory with the prefix name that I used as an option and inside that directory, there are datasets as follows:
AnatUB+orig, BiasField+orig, Classes+tlrc, Posterior+orig, Unmodulated.c+tlrc, and Unmodulated.p+orig.
I guess that Classes+tlrc is the dataset that will be looked at for checking segmentation results. Could you please tell me what information other datasets give us? Also how to you use 3dcalc to extract GM or WM as single dataset?
There are a few .1D files when I run 3dSeg. Could you please help me understand what those .1D files are?
Your feedback is greatly appreciated.
Sincerely,
Shant