BrainVISA

Thanks a lot. I have done this. My eventually aim is to get the thickness of hippocampus. I have got the mesh file (text file now), thickness file(from RIC, text file ), and mask file (MNI 3D tal space). But i have problems to find the corresponding coordinates of these three files. Do you know how ...

Hi All, I want to get the cortical thickness of hippocampus. I have done the cortical thickness for the whole brain(.mesh file, like this R_utrans_wm.mesh), and i also have done the hippocampus segmentation(labeled as 36 in a 3D MRI MINC file in Tal space). I have asked Peter Kochunov to help, he to...

Hi Jean-Francois Mangin, Thanks a lot. I have to say i am a beginner. After I have tried several times, i found it works! The results are much better! In addition, it is also faster if i cut the skull before do anything else. I am attaching 2 figures for comparison. The first one is the original bra...

Hi Jean-François Mangin, Yes, you are right. There are other problems when i used skull removed brain to do the reconstruction. I should add the skull removed brain to some step, at least not at the beginning of the processing. But i do not know where i should add. Is it possible to visit your lab t...

Thanks a lot. I have an idea to handle this problem,i.e. using FSL (fslvbm_1_bet to extract brain information) to cut the skull, then run BrainVisa after that. This is based on the fact that BrainVisa reconstructs large parts of skull for the whole brain, if the skull can be removed beforehand, the ...

Thanks a lot for replying. My MRI data acquistion details are: sequence = MP-RAGE TR(msec) = 9.7 TE(msec) = 4.0 flip angle(degree) = 10 T1(msec) = 20 TD(msec) = 200 orientation = sagittal All data were resampled to the Tal space by using mritotal before reconstruction. All my data are MINC format.

Hi, I also have some addation informations. I repeated the calculation for three subjects, results of two subjects are fine, but the the third one is not good. During the calculation, it gives: Process T1 Pipeline 2007 134 started on 2008/12/18 15:43 ------------------------------ ! VIP Warning: Som...

Hello, I am doing this work now. What i have done is as follows: First, I used 'Import T1 MRI' to load the data Second, i run 'T1 Pipeline 2007' I selected Normalised: MNI from mritotal, because i have transferred all the data to MNI space using mritotal. l leave other parameters as it is (default) ...