is the spm data mapped to the surface (with mri_vol2surf) or a volume?
On
Fri, 1 Apr 2016, Michael Asghar wrote:
Hi again
I think I've figured out how freeview works, but I'm having trouble loading
functional data taken from SPM12, and overlaying it on a surface in freesurfer.
I can load the lh.inflated and also load the spmT.nii file, but I'm just
getting a grey surface, and playing with the scale doesn't help.
I've also tried using mri_convert to get the nii into mgz, but still get the
same results.
Sorry for being a pain!
Michael
-----Original Message-----
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Michael Asghar
Sent: 01 April 2016 14:59
To: Freesurfer support list
Subject: Re: [Freesurfer] tksurfer scale bar
Thanks
-----Original Message-----
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl
Sent: 01 April 2016 14:58
To: Freesurfer support list
Subject: Re: [Freesurfer] tksurfer scale bar
freeview -f lh.inflated:overlay=lh.pet_data.mgz
would be a good place to start. There's lots of stuff on the wiki cheers Bruce
On Fri, 1 Apr 2016, Michael
Asghar wrote:
Oh, I didn’t know that. I've been advised to use tksurfer (we're trying to get
nice images of PET data overlaid on surfaces).
I haven't got a clue how to use freeview - any simple commands to load up a
surface, overlay some statistical data?
Thanks!
Michael
-----Original Message-----
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Bruce
Fischl
Sent: 01 April 2016 14:44
To: Freesurfer support list
Subject: Re: [Freesurfer] tksurfer scale bar
Hi Michael
tksurfer is deprecated - have you tried this in freeview?
cheers
Bruce
On Fri, 1 Apr
2016, Michael Asghar wrote:
Hi Freesurfer
I’m struggling with trying to edit the scale bar in tksurfer.
Commands like ‘set scalebar_bright 240’ work, but draw_scalebar gives
an invalid command error.
I’ve tried redrawing, but it doesn’t help.
Basically, I want the black background to become white (can do it via
convert –fill white –opaque black input.tiff output.tiff), but the
numbers on the scalebar are invisible now – I need the scale bar text to be
black.
Also, I get two bits to my scalebar, e.g. negative values at the
bottom from
-5 to -3, then a grey gap and then positive 3 to 5 in hot colours.
How do I get just the positive T values in a suitable distance (they
are currently squeezed up at either side).
Thanks!
Michael
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