calculate whole brain voxel number

Submitted by 403804398 on Sun, 06/07/2015 - 15:50

Dear Experts:

I'm trying to preprocess my data using "DPABI " and facing the following questions:

1.I want to calculate the exact number of whole brain voxel number,  white matter voxel number, and gray matter  from T1 images.  How could I use dapbi to achieve this target?

2.I download the dparbi_V1.2_141101  installation package, but I couldn't uncompression, because key number is Unkown. How can I get the key number of dpabi? 

 

Best,

Zhang

Forums:

YAN Chao-Gan

Mon, 06/08/2015 - 02:21

Hi Zhang,

 
1. In such a case, you first need to segment the brain (though VBM module). Then give c1 (Gray matter), c2 (White matter), c3 (CSF) files a threshold, e.g., 0.33 (though image calculator). They you can count the number of 1s in the file.
 
2.
 
 
Best,
 
Chao-Gan

403804398

Mon, 06/08/2015 - 09:36

Dear Yan, 

thanks a lot for your answer!

You mentioned that I can get the derect number though image calculator, I am a newcomer, I don't know where is the image calculator, is it in the dpabi or just a step of VBM?

Best,

Zhang

YAN Chao-Gan

Mon, 06/08/2015 - 11:00

Hi Zhang,
It's in DPABI.

After your thresholding the c1, c2 c3 files, use these codes to count the number of voxels.

Data = y_Read('c1XXX.nii');
VoxelNumber = length(find(Data));

Best,

Chao-Gan



403804398

Fri, 06/12/2015 - 05:14

Thanks a lot. 

meysam

Fri, 06/12/2015 - 18:40


 
Meysam Siyah Mansoory
PhD Student in Biomedical Engineering