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Hi Vasudev,
What lookup table are you using to visualize the results? Are you using
FreeView from the development version, and visualizing the segmentation with
the default lookup table?
Cheers,
/Eugenio
Juan Eugenio Iglesias
Centre for Medical
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Dear all,
I have used Freesurfer pipeline for Thalamic Nuclei segmentation, the
results of segmentation appear to be very poor, i am annexing the results ,
please kindly review if there is any thing wrong with the segmentation
results.
Thanks
Vasude
Hi Vasudev, if you're using freesurfer 6.0 or the development version, you can
update the recon-all makefile by running the following (this might require
sudo):
cd $FREESURFER_HOME/bin
mv recon-all.makefile recon-all.makefile.backup
curl
https://raw.githubusercontent.com/freesurfer/freesurfer/d
Use the --outmask option
On 10/07/2018 08:59 AM, N Saf wrote:
>
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>
> Dear Douglos,
>
> I did not understand how to use mri_label2label with the mask
> option(there is srcmask options not mask alone !). I extract my labels
> and as you explained I wanted to c
BTW, this should not be a problem in the next version
On 10/07/2018 08:29 AM, Jasper van den Bosch wrote:
>
>
> Michael, I can't thank you enough.
>
> Knowing that it writes to /tmp made all the difference.
> In my case I mounted an external directory on /tmp instead of the
> sessiondir approach,
You can use matlab. read_curv.m will read in a thickness.
read_annotation.m will read in the annotation. Look at the help in both
for more info
On 10/06/2018 11:36 AM, lindsay hanford wrote:
>
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>
> Hello Freesurfer Community,
>
> I am looking for a way to ex
Hi Maedeh
the surface file should be the one that defines the common coordinate
system (usually sphere.reg) and the annotation should refer to a file in
the subject's label dir. Every subject in your list must have both files.
cheers
Bruce
On Tue, 9 Oct 2018, Maedeh Khalilian wrote:
The file passed to --reg should be a registration file. This is a text file
with the transformation matrix and a few other things, not a volume file.
On 10/8/18 5:28 PM, Frehiwot Woldeyes wrote:
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Hello Freesurfers,
I was attempting to reconstruct a monkey br
But are the lh.thickness files the same or different?
On 10/9/18 1:46 AM, Jianzhong Chen wrote:
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Hi Dr. Greve,
I checked the lh.aparc.stats and rh.aparc.stats, the thicknesses (and the other
measures like volume and area) are all the same.
Thanks,
Jianzhong
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Dear Dr.Bruce Fischl
Thank you very much for your great sense of responsibility.
Sure, i have sent you a zip file named "Maedeh_results"(it was a rather big
sized one so i had to send it through Wetranser). Hope you have received it.
However, a general
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m.khalil...@sutech.ac.ir sent you some files
1 file, 378 MB in total
・ Will be deleted on 16 October, 2018
Download link:
https://wetransfer.com/downloads/9370a847d04b46d6fcbc4faec24f094e20181009110257/83dcd2124cf5da491c194f833e0c804c20181009110257/3
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