Juan Eugenio Iglesias

ERC Senior Research Fellow

Centre for Medical Image Computing (CMIC)

University College London

http://www.jeiglesias.com

http://cmictig.cs.ucl.ac.uk/

Hi Eugenio,

I want to export the volumnes of all subjects, I used the quantifyHippocampalSubfields.sh  command and apparently it did work but now I can´t find where Freesurfer saved the file.

Here is the response of Freesurfer

rmnlab1:~ neucoga$ quantifyHippocampalSubfields.sh T1-T2_3D_SAG pruebahipocampo.txt /Applications/freesurfer/subjects 
Gathering results from subjects in:
   /Applications/freesurfer/subjects
Using the suffix name:
   T1-T2_3D_SAG
And writing them to:
   pruebahipocampo.txt 

I looked for it in the subjects folder but I can not find the file anywhere.

Thanks in advance

2018-05-29 10:34 GMT+02:00 Iglesias Gonzalez, Eugenio <e.iglesias@ucl.ac.uk>:

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Hola Miguel Ángel,

What do you mean by exporting? The volumes? There is a command to gather the volumes from all subjects in the subjects directory, which is:

quantifyHippocampalSubfields.sh  (in FreeSurfer 6.0)

quantifyHAsubregions.sh (in dev version)

Cheers,

/Eugenio

 

 

-- 

Juan Eugenio Iglesias

ERC Senior Research Fellow

Centre for Medical Image Computing (CMIC)

University College London

http://www.jeiglesias.com

http://cmictig.cs.ucl.ac.uk/

 

 

From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Miguel Ángel Rivas Fernández <miguelrivasfdez@gmail.com>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Tuesday, 29 May 2018 at 09:32
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Command to export hippocampal subfields segmentations

 

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Hi Freesurfer developers,

 

 

I was looking for the freesurfer command to export hippocampal sufields segmentations but I did not found. What is the command to export this measures and in what folder are exported the file?

 

 

Thanks a lot.

 

 

Best,

--

Miguel Ángel Rivas Fernández

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