Re: [Freesurfer] Extract he value of area and volume in the fsaverage for every subject {Disarmed} {Disarmed} {Disarmed} {Disarmed}

External Email - Use Caution Thank you very much, I get lh_areapial.avgwf.dat and lh_areapial.sum file after the mri_segstats command (1) Does the lh_areapial.avgwf.dat contain areas value for all my subject? (2) When I extract the volumes, the lh_volume.sum displays the unit

Re: [Freesurfer] tkregister issue with reg-feat2anat {Disarmed}

Nope, that's a bug. I've attached a new version. Copy and make it executable cp $FREESURFER_HOME/bin chmod a+x $FREESURFER_HOME/bin/reg-feat2anat Then try again On 11/11/2020 11:55 PM, Walsh, Erin wrote: External Email - Use Caution Greetings, I am experiencing a similar tkregister2 i

Re: [Freesurfer] Extract he value of area and volume in the fsaverage for every subject {Disarmed} {Disarmed} {Disarmed} {Disarmed}

No, the area will be under the "Mean" column. Sorry, I know it is confusing. Also, you will just want to use the 2nd row. You can eliminate the first row with --exclude 0 On 11/12/2020 5:39 AM, 李梦君 wrote: External Email - Use Caution Thank you very much, I get lh_areapial.avgwf.dat

Re: [Freesurfer] Sulc maps

I think it is probably just scaling, but it has been a long time since 5.3 and 6.0 On 11/9/2020 10:10 AM, Reza Rajimehr wrote: External Email - Use Caution Hi, In the .sulc files, the range of sulcal depth values are very different (about 10 times higher) in Freesurfer v6 compared t

Re: [Freesurfer] Help with MRI labels

So you want the AAL atlas on the surface? If so, then run recon-all on the AAL anatomical T1w volume template, then use mri_vol2surf to sample the labels on the surface, then use this surface segmentation or extract labels (mri_cor2label with --surf option) or convert to an annotation (mris_seg

[Freesurfer] mris_pmake error - freadFloat: fread failed

Hi Surfers, For one subject, when I run mris_pmake as below: mris_pmake --subject --hemi lh --surface smoothwm --mpmProg pathFind --mpmArgs vertexStart:,vertexEnd: --mpmOverlay euclidean I get the following error: mris_pmake error - freadFloat: fread failed This error appears irrespecti

[Freesurfer] Support: Password Request for Ubuntu_710 to download Freesurfer on Windows 10 {Disarmed}

External Email - Use Caution Dear Freesurfer Team, Hello, my name is James Park and I have recently been trying to utilize Freesurfer on a new Windows Computer. I was able follow the instructions provided on : https://secure-web.cisco.com/1eXouftPDgg37AuJADlljMENUWBEUfGROCh_5if

Re: [Freesurfer] Support: Password Request for Ubuntu_710 to download Freesurfer on Windows 10 {Disarmed} {Disarmed}

External Email - Use Caution Hello James, I will send the password directly to your email shortly.. -R. On Nov 12, 2020, at 09:56, Park, James wrote:External Email - Use CautionDear Freesurfer Team, Hello, my name is James Park and

Re: [Freesurfer] Help with MRI labels {Disarmed}

External Email - Use Caution I want to obtain gray matter, withe matter volume, thickness and curvature based on AAL segmentation. El jue., 12 nov. 2020 15:27, Douglas N. Greve escribió: > So you want the AAL atlas on the surface? If so, then run recon-all on the > AAL anatomica

Re: [Freesurfer] Sulc maps

External Email - Use Caution Thanks Doug! It would be great to know what the exact scaling factor is. The HCP data have been processed/analyzed using FS5.3. We have a set of new subjects that have been processed using the new version of HCP pipeline which is based on FS6.0. Since w

[Freesurfer] AAL Segmentation with Freesurfer

External Email - Use Caution Dear all, Is there a possibility to segment a brain with freesurfer to an AAL Atlas. So that I get the volume and amount of voxel for all the ROIs of the AAL Atlas? Best, Steph ___ Freesurfer mailing list

Re: [Freesurfer] Extract he value of area and volume in the fsaverage for every subject {Disarmed} {Disarmed} {Disarmed} {Disarmed} {Disarmed}

External Email - Use Caution Thanks! I get only one area value in the lh_areapial.sum file with this command: mri_segstats --seg qdec/Areapial_15_L/y.mgh --slabel fsaverage lh lh.areapial.label --avgwf lh_areapial.avgwf.dat --accumulate --sum lh_areapial.sum (1)Should I e

Re: [Freesurfer] Extract he value of area and volume in the fsaverage for every subject {Disarmed} {Disarmed} {Disarmed} {Disarmed} {Disarmed}

External Email - Use Caution Thanks! I get only one area value in the lh_areapial.sum file with this command: mri_segstats --i qdec/Areapial_15_L/y.mgh --slabel fsaverage lh lh.areapial.label --avgwf lh_areapial.avgwf.dat --accumulate --sum lh_areapial.sum --exclude 0 (1)