Re: [Freesurfer] Create a label from a binary mask

2014-04-09 Thread Cherisse Onuigbo
conformed space, your command will not work On 04/04/2014 05:17 PM, Cherisse Onuigbo wrote: > mri_cor2label --c wramygdala.R.001.nii --id 1 --l wramygdala.R.001.label > tkmedit Subjects_for_Cherisse/S001 T1.mgz -aux brainmask.mgz -seg aseg.mgz > > And then I added the label using t

Re: [Freesurfer] Create a label from a binary mask

2014-04-04 Thread Cherisse Onuigbo
tkmedit command lines? SPM will never work properly for what you are trying to do. On 04/04/2014 04:42 PM, Cherisse Onuigbo wrote: > I first checked it in tkmedit, but I didn't see the region in green as > I went through the slices. I also put another label in there just to >

Re: [Freesurfer] Create a label from a binary mask

2014-04-04 Thread Cherisse Onuigbo
M, you'll have to use tkmedit or freeview On 04/04/2014 04:04 PM, Cherisse Onuigbo wrote: > My mask is a volume mask. When I run the function normally, the > vertices that are in the text file do not fall in the region of my mask. > On Friday, April 4, 2014 2:28 PM, Douglas N Greve

Re: [Freesurfer] Create a label from a binary mask

2014-04-04 Thread Cherisse Onuigbo
k? In mri_cor2label, you can specify a surface to get surface vertex numbers. doug On 04/02/2014 07:03 PM, Cherisse Onuigbo wrote: > Hello > > I was wondering how to create a label from a binary mask. I created a > mask and then normalized it to the template space. When I tried to u

[Freesurfer] Create a label from a binary mask

2014-04-02 Thread Cherisse Onuigbo
Hello I was wondering how to create a label from a binary mask. I created a mask and then normalized it to the template space. When I tried to use mri_cor2vol, all the vertex numbers come out as -1. I understand that the vertex numbers should come out as -1, but when I entered the coordinates i