It will be added very soon. I'll let you know when it is ready.
Best,
Ruopeng
On 05/28/2018 05:35 PM, srishti goel wrote:
Hi Ruopeng,
Thank you so much! That option will be super helpful. Are you planning
to add that option to Freeview soon?
Best,
Srishti
Best,
Srishti
Social/Clinical Research Specialist
Child Imaging Research and Life Experiences Lab
University of North Carolina at Chapel Hill
email (W): srish...@email.unc.edu <mailto:srish...@email.unc.edu>
skype: srishti.goel12
On Mon, May 28, 2018 at 2:28 PM, Ruopeng Wang
<rpw...@nmr.mgh.harvard.edu <mailto:rpw...@nmr.mgh.harvard.edu>> wrote:
Hi Srishti,
In freeview surface labels are always displayed on top of
overlays. I will add an option to change that.
Best,
Ruopeng
On May 28, 2018, at 9:18 AM, srishti goel
<23srishtig...@gmail.com <mailto:23srishtig...@gmail.com>> wrote:
Hello,
I did use Freeview but I think using either TkSurfer or Freeview
won't matter because what I am trying to figure out is what the
fthresh value means for the map.
From reading the archive, I understand that, for instance,
fthresh value of 0.3 will mean that the overlay displays 50%
(1/10^3) threshold based on intensity/ only voxels which are
overlaid by 50% of the subjects. In my case, the maps are visible
at fthresh 0.1 and below but since these are already thresholded
maps from a meta-analysis I am not very clear on how to interpret
the fthresh here. Is it voxels overlaid by ~80% of studies?
The other thing I want to figure out is that right now when I
view my overlay with two other labels, the labels (when in solid
color and not outline) cover my overlay. But I would want it the
other way round such that the overlay comes on top of the solid
colored labels. Does anyone know how I can achieve that?
Thank you so much!
Best,
Srishti
Best,
Srishti
Social/Clinical Research Specialist
Child Imaging Research and Life Experiences Lab
University of North Carolina at Chapel Hill
email (W): srish...@email.unc.edu <mailto:srish...@email.unc.edu>
skype: srishti.goel12
On Fri, May 25, 2018 at 10:09 AM, Douglas Greve
<dgr...@mgh.harvard.edu <mailto:dgr...@mgh.harvard.edu>> wrote:
I don't know anything about neuroelf, but unless your have a
binarized map, then the map is going to change when you
change the threshold. BTW, if you wan to use freeview, you
can run tksurferfv with the same args as tksurfer
On 5/22/18 3:49 PM, srishti goel wrote:
Hello,
I am trying to view network based maps produced from a
meta-analysis using neuroelf on the surface in freesurfer.
The meta-analytic maps are thresholded maps that represent
the proportion of contrasts that activated at each voxel
I projected my maps on the surface using:
mri_vol2surf --src negative_allsocial_proportion.img
--regheader mni152_subject --hemi lh --o
./neg_allsocial_lh.nii --projfrac 0.5
Then to view it used:
tksurfer mni152_subject lh inflated -overlay
./neg_allsocial_lh.nii -fthresh 0.05
The issue I have is with the fthresh value. I read the wiki
and some stuff on archive about the fthresh value but I am
unsure what it exactly means and does. My issue is that the
display of my maps changes when I change the fthresh value
even though the maps have been k-thresholded using neuroelf
before exporting them to freesurfer. More area is marked up
when I decrease the threshold value from 0.1 to 0.05 and
nothing is visible above 0.1
Does anyone have any thoughts about what might be going on
there and how I can fix it?
Do I need to do something totally different from what I am
doing?
Best,
Srishti
Social/Clinical Research Specialist
Child Imaging Research and Life Experiences Lab
University of North Carolina at Chapel Hill
email (W): srish...@email.unc.edu
<mailto:srish...@email.unc.edu>
skype: srishti.goel12
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