Oops.
Sorry Andrew, that is a script that I think just takes some lines from the
recon-all script. I can't remember whether I wrote it, or someone else (sorry),
but here it is:
--
#!/bin/bash
# thresholds probabilities in one file to another at th
Hi FreeSurfer folk:
I have a question that is in the same vein as Marie's. Should not the sum
of the Hippocampal subregional volumes be = total hemispheric Hippocampal
volume?
thanks,
Alan
On Wed, Nov 16, 2011 at 2:52 AM, Marie Schaer wrote:
>
> Hi all,
>
> I just ran the hippo-subfield segme
Hi Koen and FreeSurfers:
I have a 3T dataset that has undergone processing using 5.1. I have also
run the Hippo sub fields command. Here are my results:
[root@NeuroImage-Gamma mri]# kvlQuantifyPosteriorProbabilityImages
$FREESURFER_HOME/data/GEMS/compressionLookupTable.txt posterior_right_*
poste
Alan- I believe the label "hippocampus" here refers to the remaining hippo
segment after the algorithm has completed labelling of all subfields. In
essence this would not be a measure that conveys very meaningful info.
Sent from my iPhone
On Nov 16, 2011, at 1:01 PM, Alan Francis wrote:
> H
Thanks Shashwath.
On Wed, Nov 16, 2011 at 2:04 PM, Shashwath wrote:
> Alan- I believe the label "hippocampus" here refers to the remaining hippo
> segment after the algorithm has completed labelling of all subfields. In
> essence this would not be a measure that conveys very meaningful info.
>
Hi Lilla,
Many thanks again for your help. In the mean time I checked with echo
$FREESURFER_HOME and as I knew my $FREESURFER_HOME is /usr/local/freesurfer
Under this directory I have the subjects directory but here unfortunately I am
having the cvs_avg35/mri/norm.mgz.
1) Can you please h
i dont know the answer to your question, but there have been some bug
fixes to the hippocampal fields stuff since the 5.1 release. i've
posted tarballs of the relevant executables here:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/misc/
in these directories, corresponding to the 32b-linu
