Hi list, I'm running TRACULA. I do not have problem when I have 16 DTI direction and b=0 is the first volume: I put nb0=1. For some subjects I have 16 direction but b=0 is the last of volume in dwi.nii.gz. What is the value of nb0 that I should put? nb0 is relative to position of b=0 in the bvals.txt or to total number (quantitative) of b=0 in the bvals.txt? Thanks,
Stefano
Isn't nb0 the *number* of b0 images? Therefore it should be 1 no matter where in the table it is. From the tutorial:
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Tracula
Step7.3: Specifying Number Of low-b Images The last step to set up if not using original DICOMs would be to specify the number of low-b images with the following variable:
set nb0 = *No. of low-b images*
** - To be replaced with the actual number from the acquisition.
On Thu, February 21, 2013 8:45 am, stdp82@virgilio.it wrote:
Hi list, I'm running TRACULA. I do not have problem when I have 16 DTI direction and b=0 is the first volume: I put nb0=1. For some subjects I have 16 direction but b=0 is the last of volume in dwi.nii.gz. What is the value of nb0 that I should put? nb0 is relative to position of b=0 in the bvals.txt or to total number (quantitative) of b=0 in the bvals.txt? Thanks,
Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
------------------------------------------------------------------------------------- Juan Eugenio Iglesias, PhD http://www.jeiglesias.com iglesias@nmr.mgh.harvard.edu Athinoula A. Martinos Center for Biomedical Imaging 149 Thirteenth Street, Suite 2301 Charlestown, Massachusetts 2129 U.S.A.
Hi Juan, The number of b0 images can be more than 1; it is specified when you acquire the image. Hth, Shantanu
On Thu, February 21, 2013 12:16 pm, Juan Eugenio Iglesias wrote:
Isn't nb0 the *number* of b0 images? Therefore it should be 1 no matter where in the table it is. From the tutorial:
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Tracula
Step7.3: Specifying Number Of low-b Images The last step to set up if not using original DICOMs would be to specify the number of low-b images with the following variable:
set nb0 = *No. of low-b images*
** - To be replaced with the actual number from the acquisition.
On Thu, February 21, 2013 8:45 am, stdp82@virgilio.it wrote:
Hi list, I'm running TRACULA. I do not have problem when I have 16 DTI direction and b=0 is the first volume: I put nb0=1. For some subjects I have 16 direction but b=0 is the last of volume in dwi.nii.gz. What is the value of nb0 that I should put? nb0 is relative to position of b=0 in the bvals.txt or to total number (quantitative) of b=0 in the bvals.txt? Thanks,
Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Juan Eugenio Iglesias, PhD http://www.jeiglesias.com iglesias@nmr.mgh.harvard.edu Athinoula A. Martinos Center for Biomedical Imaging 149 Thirteenth Street, Suite 2301 Charlestown, Massachusetts 2129 U.S.A. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Of course! But, if I understood correctly, Stefano only has one, either at the beginning of the end of the gradient table, and in both cases nb0=1 Cheers, /Eugenio
On Thu, February 21, 2013 12:20 pm, Shantanu Ghosh wrote:
Hi Juan, The number of b0 images can be more than 1; it is specified when you acquire the image. Hth, Shantanu
On Thu, February 21, 2013 12:16 pm, Juan Eugenio Iglesias wrote:
Isn't nb0 the *number* of b0 images? Therefore it should be 1 no matter where in the table it is. From the tutorial:
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Tracula
Step7.3: Specifying Number Of low-b Images The last step to set up if not using original DICOMs would be to specify the number of low-b images with the following variable:
set nb0 = *No. of low-b images*
** - To be replaced with the actual number from the acquisition.
On Thu, February 21, 2013 8:45 am, stdp82@virgilio.it wrote:
Hi list, I'm running TRACULA. I do not have problem when I have 16 DTI direction and b=0 is the first volume: I put nb0=1. For some subjects I have 16 direction but b=0 is the last of volume in dwi.nii.gz. What is the value of nb0 that I should put? nb0 is relative to position of b=0 in the bvals.txt or to total number (quantitative) of b=0 in the bvals.txt? Thanks,
Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Juan Eugenio Iglesias, PhD http://www.jeiglesias.com iglesias@nmr.mgh.harvard.edu Athinoula A. Martinos Center for Biomedical Imaging 149 Thirteenth Street, Suite 2301 Charlestown, Massachusetts 2129 U.S.A. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Shantanu Ghosh, Ph.D. Harvard Medical School & Massachusetts General Hospital Martinos Center for Biomedical Imaging
------------------------------------------------------------------------------------- Juan Eugenio Iglesias, PhD http://www.jeiglesias.com iglesias@nmr.mgh.harvard.edu Athinoula A. Martinos Center for Biomedical Imaging 149 Thirteenth Street, Suite 2301 Charlestown, Massachusetts 2129 U.S.A.
freesurfer@nmr.mgh.harvard.edu
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Juan Eugenio Iglesias -
Shantanu Ghosh -
stdp82＠virgilio.it