Dear FS
I typed in: aparcstats2table --hemi lh --meas thickness --subjects A01_T1
A02_T1 etc... A10_T1 --tablefile lh.aparc.thickness.table (followed by) gnumeric lh.aparc.thickness.table. As soon as I typed in the latter, it generated the table attached in the previous mail.
Thank you with regards to the second question.. However, for volumes aparcstats2table it doesn't generate a mean volume (column AJ is empty). Is that supposed to be?
Kind regards, Caroline
Van: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] Namens Douglas Greve Verzonden: woensdag 16 maart 2016 15:38 Aan: freesurfer@nmr.mgh.harvard.edu Onderwerp: Re: [Freesurfer] gnumeric file
On 3/16/16 6:52 AM, Caroline Beelen wrote: Hi FS team,
Sorry for these rather basic questions...
I'm not sure whether the gnumeric file is an ascii file (see mails below). Attached you'll find the file. It seems the case when you open it in the terminal screen that the nr's look fine (with command cat). However as soon as you type the command gnumeric and so on, it creates a wrong table from the start (see file attached). Can I somehow change this? How did you create this file? The aparcstats2table command produces a simple ascii file.
I have an additional question: I was looking at the Qdec info (tutorial) and I am not totally sure how to create the table.dat file... Where to get the volume measures from, if you'd like to include those? The statistical folder (where the tables are from)? Run asegstats2table and/or aparcstats2table to create a table of the volumes, then extract the values you need. BTW, you don't have to have volume measures in the qdec table.
Thank you for responding in advance.
Kind regards, Caroline
-----Oorspronkelijk bericht----- Van: freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] Namens Douglas N Greve Verzonden: dinsdag 8 maart 2016 0:24 Aan: freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu Onderwerp: Re: [Freesurfer] mean thickness
the table file lh.aparc.thickness.table should be an ascii file. when you look at it with cat/more/less, what do you see? Can you send that table file?
On 03/07/2016 04:33 AM, Caroline Beelen wrote:
Hi Bruce,
I'm a beginner in FS, so I just followed tutorial instructions for generating the files carefully... I generated it by typing in for instance (after recon-all process was done): aparcstats2table --hemi lh --meas thickness --subjects A01_T1 A02_T1 etc... A10_T1 --tablefile lh.aparc.thickness.table followed by the command: gnumeric lh.aparc.thickness.table
It's a linux pc with Ubuntu 12.04 LTS (processor intel core i7-3770 CPU @ 3.4GHz x 8)
Attached the log file (A09).
Thank you very much!
Greetings, Caroline
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