Dear FreeSurfer experts,
I know that it is possible to submit data with only one timepoint into
the longitudinal stream with FreeSurfer 5.2. My question is, what is the exact
command?
is it:
1) recon-all -base -tp -all
or
2) recon-all -base -tp -tp -allI have accidently
run them with the
Hello,
We are trying to figure out how to expand the pial surface after FreeSurfer
processing has occured. The processed brainmask.mgz has defined the gray matter
as red, but the pial surface does not extend out to the red gray matter on a
portion of the temporal lobe. Is there a way to expand
Hi Doug,
Thanks for the help, that seemed to worked great. I have a few follow up
questions about how to process the resulting statistics.
I'm still using v4.5 (can't switch to v5 yet), as I mentioned, and would like
to get the % signal change for certain contrasts with error bars. Looking
Hello all,
I have a need to generate LH and RH WM masks for analysis.
I can convert aseg.mgz to aseg.nii but the dims are 256x256x256
and I need to use the FSL MNI format which is 182x218x182.
Is there a recipe for cropping / translating etc to match the aseg.mgz
atlas with the FSL atlases?
Tha
Tudor,
I dont have any other suggestions, other than to make sure, as i
mentioned before, then you have free space on the disk that appears
within Xubuntu. That is, from a terminal, when you type:
df -h
you should see that /dev/sda1 has about 2GB of space. the nu_correct
tools will fail if ther
Hi Rebecca
you need to diagnose why it's happening. Is the underlying white matter
intensity 110 or close? If it's significantly lower you could try adding
control points there.
cheers
Bruce
On Wed, 13 Feb 2013, Rebecca Rada wrote:
> Hello,
>
> We are trying to figure out how to expand the pi
you can use mni152reg to compute the registration to the MNI152 space.
Make sure to spec the 1mm target. You can then use mri_label2vol to map
aseg.mgz to the MNI152 space.
doug
On 02/13/2013 03:40 PM, Roderick McColl wrote:
> Hello all,
> I have a need to generate LH and RH WM masks for analy
1). Yes
2) Right, pull the scale outside of the sqrt()
doug
On 02/13/2013 03:36 PM, Clark Fisher wrote:
> Hi Doug,
>
> Thanks for the help, that seemed to worked great. I have a few
> follow up questions about how to process the resulting statistics.
>
> I'm still using v4.5 (can't switch to
Hi Jorge,
Thanks again for the detailed and very helpful explanation !
I thought that all statistics should better be performed with LME in
order to give more credibility to final results. But also it brings more
trust if in the article statistics are performed with the same method.
Anyway -
