Re: [Freesurfer] Entorhinal Cortex segmentation and volume

2016-03-01 Thread Bruce Fischl
Hi Melina Sorry for the delay in responindg, can you tell us a bit more about the acquisition? They look very grainy and low contrast. Bruce On Mon, 16 Feb 2015, Melina Lehnerer wrote: > Thank you both for your respond. > 1. I have attached you some pictures. Like douglas wrote it

Re: [Freesurfer] Entorhinal Cortex segmentation and volume

2015-02-16 Thread Douglas Greve
Yes, that is normal On 2/16/15 11:42 AM, Melina Lehnerer wrote: Thank you both for your respond. 1. I have attached you some pictures. Like douglas wrote it corresponds to white matter in aseg, but is more often labelled as none than cortex unknown. So is this normal and can I trust those

Re: [Freesurfer] Entorhinal Cortex segmentation and volume

2015-02-16 Thread Bruce Fischl
Hi Melina 1. Can you send us a picture? I'm not sure given your description, although the surfaces can be arbitrary in the hippocampus/amygdala and should be ignored there. 2. You should be able to use mri_label2vol for this. Note that you can load the label itself directly into freeview if

[Freesurfer] Entorhinal Cortex segmentation and volume

2015-02-16 Thread Melina Lehnerer
Hi experts, I'm rather unexperienced with freesurfer so please excuse my basic requests. 1. I controlled the segmentation of the entorhinal cortex (EC) in over 50 subjects following the borders described in Fischl 2009 (Predicting the location of EC from MRI) with tkmedit [mri name]

Re: [Freesurfer] Entorhinal Cortex segmentation and volume

2015-02-16 Thread Douglas Greve
On 2/16/15 9:31 AM, Bruce Fischl wrote: Hi Melina 1. Can you send us a picture? I'm not sure given your description, although the surfaces can be arbitrary in the hippocampus/amygdala and should be ignored there. This corresponds to the cortex unknown label in aparc (and is probably