Hey Bruce,

The scans are done on 3T Siemens TRIO and 8 Channel head coil with a GRAPPA of 2.

Here is the screen shot of protocol used.

https://waynestateprod-my.sharepoint.com/personal/ao3080_wayne_edu/_layouts/15/guestaccess.aspx?guestaccesstoken=VJ0QiLxUz9fI6GCUofGHq7IAQY6k4uG50U0ic0zBkHE%3d&docid=034b186e0a218401590414fc271f3cf5f

Thanks

Regards
Tilak

From: Ramtilak Gattu
Sent: Saturday, March 26, 2016 6:59 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: improving white/grey segmentation in recon -all for better volume estmation

Hey Bruce,

Thanks for the quick reply.

I have uploaded the cases in

https://waynestateprod-my.sharepoint.com/personal/ao3080_wayne_edu/_layouts/15/guestaccess.aspx?guestaccesstoken=%2bkyhy0gR4k7Q3AechqG%2bjqb89ALB94xWlpwBQnNAhG8%3d&docid=0a72431d82b4d4b9b924cccbdfb7f34f8

The voxel dimensions are 1x1x1 mm.

Thanks

Regards

Tilak

From: Ramtilak Gattu
Sent: Friday, March 25, 2016 9:59 PM
To: freesurfer@nmr.mgh.harvard.edu
Cc: tilakgattu@hotmail.com
Subject: improving white/grey segmentation in recon -all for better volume estmation

Hello all,

We have run recon -all on some healthy control subjects T1 images but we found out that the gray-white segmentation on half our subjects is bad and it leads to increased white matter volumes and decreased gray matter volumes. I have included a snap shot showing the difference in segmentation from bad to good for 3 cases

https://waynestateprod-my.sharepoint.com/personal/ao3080_wayne_edu/_layouts/15/guestaccess.aspx?guestaccesstoken=ajPIRobFq548RyhRJWPQ9q70vAXUGIJ9h5WPDE1klUw%3d&docid=0dd4546a8004f46578b7a2177b192806a

. The parameter in the sequence are TE=4.92 ms, TR=19 ms, Flip angle =20 degrees. and use a snapshot one slice to show the good CNR. We are using Freesurfer version 5.3.

Thanks

Regards

Tilak.