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Dear Doug,
*--sumwf * seems to work fine - it gives subjectwise values and values
seems of to be of volume:
11262.26605
9294.07182
12673.14610
12601.33416
11141.31917
Whenever you get a chance, could you please confirm if --sumwf is
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Hello Doug,
Any advantages of surface-based smoothing of the gm thickness maps beside
increasing signal to noise ratio? I read the paper and based on the results
and conclusion, mcz with higher threshold and fwhm should be fine (though
permutation is
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Dear Doug,
Yes, that gives me subjectwise values if I run the following command, but
now the output doesn't seem to be the volume values, it gives very small
subjectwise values as following:
mri_segstats --seg lh.HC_GAD.vol.glmdir/p_bin.mgz
Use the --avgwf output.table instead of --sum
On 9/30/2020 1:48 PM, Martin Juneja wrote:
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Dear Doug,
Thanks for your response. I created a binary mask and ran the
following command, but the output gives me only one value of volume as
follows. I was
It looks like the problem is that condition 8 is never presented. There
are 240 time points in the run. At a TR of 1.08, the run ends at 259.2
seconds, so neither condition 7 nor 8 are actually presented.
On 9/28/2020 3:12 PM, Erica Israel wrote:
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Hi
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Dear Doug,
Thanks for your response. I created a binary mask and ran the following
command, but the output gives me only one value of volume as follows. I was
wondering how I can extract the values for each subject.
mri_segstats --seg
Did you map the networks into the native subject space and then compute
the mean thickness for each ROI? If so, try to compute the subject/ROI
means after all preprocessing (ie, on the argument to --y in
mri_glmfit). You can do this with mri_segstats using --annot fsaverage
hemi parc and
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Dear Freesurfer users, (apologies for cross-posting)
I am pleased to announce the 3nd major release of my R package for graph
theory analysis of brain MRI data, "brainGraph".
The main page on CRAN is at:
External Email - Use Caution发自我的华为手机 原始邮件 发件人： miracle ozzoude 日期： 2020年9月30日周三 晚上10:38收件人： Freesurfer support list 主题： Re: [Freesurfer] grey matter thickness map and SNRExternal Email - Use CautionThank you very much Doug. I appreciate it. I
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Thank you very much Doug. I appreciate it. I guess we will have to redo our
analyses based using permutation and hope the results are the same
On Wed, Sep 30, 2020 at 10:22 AM Douglas N. Greve
wrote:
>
> For statistical analysis, the reviewer is
For statistical analysis, the reviewer is right, see
https://pubmed.ncbi.nlm.nih.gov/29288131
We are recommending permutation analysis, see
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultipleComparisonsV6.0Perm
or
https://surfer.nmr.mgh.harvard.edu/fswiki/FsPalm
On 9/30/2020 9:23
You will have four regressors:
M-offset
F-offset
M-age-slope
F-age-slope
so use contrast [0.5 0.5 0 0] This averages the M and F offsets. You
could also do an F-test with contrast
1 0 0 0
0 1 0 0
On 9/30/2020 12:35 AM, WON JONG CHWA wrote:
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Hello,
I am
If you have a binary mask or cluster mask, you can use mri_segstats, like
mri_segstats --seg binary-or-clustermask.mgz --excludeid 0 --i
volumestack.mgz --accumulate --sum volumesum.dat
where volumestack.mgz is a stack of the subjects volume (eg, created by
mris_preproc)
On 9/29/2020 1:32
Can you send pictures of the ?h.orig.nofix surface in addition to the
white and pial?
On 9/29/2020 12:24 PM, Jake Jensen wrote:
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Douglas,
I have attempted to edit the wm.mgz and subsequently run -autorecon2.
However the ?h.white surface remains extended.
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Hello Experts,
I have a question regarding grey matter thickness map and signal to noise
ratio. Does smoothing of the map increase signal to noise during surface
based cortical thickness analyses? if yes or no, why? This question was
asked by a
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