Dear FreeSurfer experts,
in the longitudinal 2 stage model I find a difference in rate between my two groups in right intra parietal sulcus for surface area (survives MC correction). I would like to look at the cortical thickness in that same cluster. Is it possible to use any of the output files from the MC correction as a mask or something to get the rate of change values for thickness in that region? Even though this region does not show a significant difference between the groups I would like to look at the individual values for rate of change in that specific region (like the ones I received in the cache.th30.abs.y.ocn.dat file)
Could you please tell me if this is possible and how?
Thank you very much! Clara
You can use mri_segstats specifying the ocn as the segmentation, the stack of thicknesses as the input, and --avgwf file.dat as the output. Make sure to add --excludeid 0 to exclude background voxels
On 07/27/2017 06:18 AM, Clara Kühn wrote:
Dear FreeSurfer experts,
in the longitudinal 2 stage model I find a difference in rate between my two groups in right intra parietal sulcus for surface area (survives MC correction). I would like to look at the cortical thickness in that same cluster. Is it possible to use any of the output files from the MC correction as a mask or something to get the rate of change values for thickness in that region? Even though this region does not show a significant difference between the groups I would like to look at the individual values for rate of change in that specific region (like the ones I received in the cache.th30.abs.y.ocn.dat file)
Could you please tell me if this is possible and how?
Thank you very much! Clara
Dear Doug,
thank you so much. I now have a value for each of my participants. Since I work with rate of change from pre to post time point I should interpret these values as mm per year that each subjects changes in thickness in this cluster, right? Because I have values between -3.37363 and 2.99830. Does that mean that these subject would lose or gain 3 mm per year in thickness in this specific area?
Thank you for you help! Clara
----- Ursprüngliche Mail ----- Von: "Douglas N Greve" greve@nmr.mgh.harvard.edu An: freesurfer@nmr.mgh.harvard.edu Gesendet: Donnerstag, 27. Juli 2017 19:10:50 Betreff: Re: [Freesurfer] extract values for significant cluster
You can use mri_segstats specifying the ocn as the segmentation, the stack of thicknesses as the input, and --avgwf file.dat as the output. Make sure to add --excludeid 0 to exclude background voxels
On 07/27/2017 06:18 AM, Clara Kühn wrote:
Dear FreeSurfer experts,
in the longitudinal 2 stage model I find a difference in rate between my two groups in right intra parietal sulcus for surface area (survives MC correction). I would like to look at the cortical thickness in that same cluster. Is it possible to use any of the output files from the MC correction as a mask or something to get the rate of change values for thickness in that region? Even though this region does not show a significant difference between the groups I would like to look at the individual values for rate of change in that specific region (like the ones I received in the cache.th30.abs.y.ocn.dat file)
Could you please tell me if this is possible and how?
Thank you very much! Clara
I don't know what the rest of your analysis is about. If you created maps of change in thickness per year and you extracted those values, then that is what you will get.
On 7/28/17 4:24 AM, Clara Kühn wrote:
Dear Doug,
thank you so much. I now have a value for each of my participants. Since I work with rate of change from pre to post time point I should interpret these values as mm per year that each subjects changes in thickness in this cluster, right? Because I have values between -3.37363 and 2.99830. Does that mean that these subject would lose or gain 3 mm per year in thickness in this specific area?
Thank you for you help! Clara
----- Ursprüngliche Mail ----- Von: "Douglas N Greve" greve@nmr.mgh.harvard.edu An: freesurfer@nmr.mgh.harvard.edu Gesendet: Donnerstag, 27. Juli 2017 19:10:50 Betreff: Re: [Freesurfer] extract values for significant cluster
You can use mri_segstats specifying the ocn as the segmentation, the stack of thicknesses as the input, and --avgwf file.dat as the output. Make sure to add --excludeid 0 to exclude background voxels
On 07/27/2017 06:18 AM, Clara Kühn wrote:
Dear FreeSurfer experts,
in the longitudinal 2 stage model I find a difference in rate between my two groups in right intra parietal sulcus for surface area (survives MC correction). I would like to look at the cortical thickness in that same cluster. Is it possible to use any of the output files from the MC correction as a mask or something to get the rate of change values for thickness in that region? Even though this region does not show a significant difference between the groups I would like to look at the individual values for rate of change in that specific region (like the ones I received in the cache.th30.abs.y.ocn.dat file)
Could you please tell me if this is possible and how?
Thank you very much! Clara
freesurfer@nmr.mgh.harvard.edu
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Clara Kühn -
Douglas Greve -
Douglas N Greve