We are working on a study that includes data from multiple scanners and initial indication suggest that there may be small differences in cortical thickness measures that are scanner related (human and other phantom data were acquired at both sites).
Is it possible to include a correction factor adjusting for the scanner differences when using glmfit or qdec?
Thanks,
David
David F. Tate, Ph.D. Research Neuropsychologist Defense and Veterans Brain Injury Center Contractor, General Dynamics Information Technology Brooke Army Medical Center MCHE MDU (DVBIC) 3551 Roger Brooke Drive JSBA Ft. Sam Houston, TX 78234-4504
Office (210) 916-8090
I would probably just include scanner as a nuisance variable. Can you do that?
On 04/17/2014 12:07 PM, David Tate wrote:
We are working on a study that includes data from multiple scanners and initial indication suggest that there may be small differences in cortical thickness measures that are scanner related (human and other phantom data were acquired at both sites).
Is it possible to include a correction factor adjusting for the scanner differences when using glmfit or qdec?
Thanks,
David
David F. Tate, Ph.D. Research Neuropsychologist Defense and Veterans Brain Injury Center Contractor, General Dynamics Information Technology Brooke Army Medical Center MCHE MDU (DVBIC) 3551 Roger Brooke Drive JSBA Ft. Sam Houston, TX 78234-4504
Office (210) 916-8090
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
FreeSurfer Gurus, I would like to pose this question again to the group if possible. We are working with data that comes from two different scanners. Our experimental group was collected on one scanner and then control data was acquired on another scanner. Not the optimal situation I realize but unavoidable. We were fortunate to be able to acquire imaging for a subsample of patients on both scanners in the same day. Preliminary results suggest that one site measures cortical thickness and subcortical volumes in a non-significant (statistically) but consistent direction with one scanner producing larger volume and thickness measures.
My question is whether or not it is possible to mathematically account for these differences in any analysis that we are doing using FreeSurfer and if so where can I find those procedures for practically implementing the correction?
Thanks in advance for any help with this.
David
On Apr 17, 2014, at 11:07 AM, David Tate dftatephd@mac.com wrote:
We are working on a study that includes data from multiple scanners and initial indication suggest that there may be small differences in cortical thickness measures that are scanner related (human and other phantom data were acquired at both sites).
Is it possible to include a correction factor adjusting for the scanner differences when using glmfit or qdec?
Thanks,
David
David F. Tate, Ph.D. Research Neuropsychologist Defense and Veterans Brain Injury Center Contractor, General Dynamics Information Technology Brooke Army Medical Center MCHE MDU (DVBIC) 3551 Roger Brooke Drive JSBA Ft. Sam Houston, TX 78234-4504
Office (210) 916-8090
In your FSGD you'll have to add a covariate for "scanner"
On 08/08/2014 12:34 PM, David Tate wrote:
FreeSurfer Gurus, I would like to pose this question again to the group if possible. We are working with data that comes from two different scanners. Our experimental group was collected on one scanner and then control data was acquired on another scanner. Not the optimal situation I realize but unavoidable. We were fortunate to be able to acquire imaging for a subsample of patients on both scanners in the same day. Preliminary results suggest that one site measures cortical thickness and subcortical volumes in a non-significant (statistically) but consistent direction with one scanner producing larger volume and thickness measures.
My question is whether or not it is possible to mathematically account for these differences in any analysis that we are doing using FreeSurfer and if so where can I find those procedures for practically implementing the correction?
Thanks in advance for any help with this.
David
On Apr 17, 2014, at 11:07 AM, David Tate <dftatephd@mac.com mailto:dftatephd@mac.com> wrote:
We are working on a study that includes data from multiple scanners and initial indication suggest that there may be small differences in cortical thickness measures that are scanner related (human and other phantom data were acquired at both sites).
Is it possible to include a correction factor adjusting for the scanner differences when using glmfit or qdec?
Thanks,
David
David F. Tate, Ph.D. Research Neuropsychologist Defense and Veterans Brain Injury Center Contractor, General Dynamics Information Technology Brooke Army Medical Center MCHE MDU (DVBIC) 3551 Roger Brooke Drive JSBA Ft. Sam Houston, TX 78234-4504
Office (210) 916-8090
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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