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Dear Freesurfer team,
I am inspecting the different participants I have run recon-all -all and I
have found different errors I would like to discuss with you before
proceeding as I am new with this software.
1. I have found dura at some regions of the
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Dear TRACULA experts
I try to run trac-all -prep using the "Perform registration-based
B0-inhomogeneity compensation“ option, but the following error occurred:
mri_convert /Volumes/Datenspeicher/01_IPS/04_C_DTI_TRACULA/TRACULA_Prepared/
/Volumes/Dat
Hi all,
I've used mri_glmfit to run some GLMs on surface data. Now I would like to
visualize the "gamma.mgh" output in freeview, but only with vertices colored if
they're above or below a certain value according to the "z.mgh" output of
mri_glmfit. In other words, visualize the gamma file norma
You can click on “Configure Overlay” button on the left pane to adjust
threshold for the overlay display.
Ruopeng
On Jun 29, 2021, at 9:53 AM, Jacoby, John
mailto:jjac...@mgh.harvard.edu>> wrote:
Hi all,
I've used mri_glmfit to run some GLMs on surface data. Now I would like to
visualize the
Hi Jürgen - In principle they can be any format that mri_convert reads, so they
could be nifti. I suspect there's some glitch with where it's looking for the
files vs. where they are. Can you please attach your config file?
I have a grant deadline tomorrow, but will look after that. Thanks!
Ana
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Dear freesurfers,
for a morphometry study, I am comparing a single subject at a time to a group
of controls. I would like to include age, gender (as a continuous variable for
the sake of simplicity) and eTIV as "nuisance" regressors in the GLM. The
The "thresholding" options work well for thresholding a single overlay, but I
would like to threshold one overlay using the values of a second overlay.
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Hi John,
I think you can use `mris_calc` for this, e.g:
mris_calc -o ~/test-output $FREESURFER_HOME/subjects/bert/surf/lh.thickness
lt $FREESURFER_HOME/subjects/bert/surf/lh.curv
Run `mris_calc -u` for more instructions.
-Paul
On Tue, Jun 29, 2021
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Hello,
I was trying to use mri_seg_overlap to find the DICE coefficient but,
unless having FreeSurfer installed, I receive a "command not found" error
when I try to run the tool.
I hope you can help me.
Regards,
Javier.
_
