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Hello experts,
I am following these instructions
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis to
analyze the association between IQ and whole brain cortical thickness of
brain areas (which by default uses Desikan atlas of 34 regio
2020 at 9:13 AM Douglas N. Greve
wrote:
>
>
> On 6/29/2020 8:45 PM, Martin Juneja wrote:
>
> External Email - Use Caution
> Hello experts,
>
> I am following these instructions
> https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis to
> ana
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Hi experts,
I extracted network-wise cortical measures (i.e., 7 cortical thickness
values for 7 networks for Yeo atlas).
I was wondering if there is a way to get the cortical thickness of each ROI
within each of these networks e.g., cortical thickness
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Hi FreeSurfer experts,
I am trying to run write_annonation program in MATLAB and getting following
error:
>> [v, L, ct] = read_annotation('lh.Yeo2011_7Networks_N1000.annot');
>> ct.table(1:6,1:3) = 1;
>> write_annotation('lh_Yeo2011_DMN',v,L,ct);
Erro
On 7/14/2020 5:00 PM, Martin Juneja wrote:
>
> External Email - Use Caution
> Hi experts,
>
> I extracted network-wise cortical measures (i.e., 7 cortical thickness
> values for 7 networks for Yeo atlas).
>
> I was wondering if there is a way to get the cortical
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Hello FreeSurfer experts,
I have this interesting situation. I understand its important to include
ICV as a covariate while conducting cortical volume (CV) analysis.
So for my clinical sample (CL) vs healthy-controls (HCs):
1. If I do *network-wise* a
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Hello everyone,
I have significant group differences in volume (controls > patients) for
one of the clusters (say C1) - calculated after permutation test using
PALM, which gives me following outputs:
*_clustere_tstat_fwep.mgz (this is significant at p
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Dear Doug and FreeSurfer team,
Any help with this on an urgent basis would be really appreciated. Sorry
for being a little impatient :(.
Thank you so much !
-- Forwarded message -
From: Martin Juneja
Date: Mon, Sep 28, 2020 at 5:42
, created by
> mris_preproc)
>
>
> On 9/29/2020 1:32 PM, Martin Juneja wrote:
>
> External Email - Use Caution
> Dear Doug and FreeSurfer team,
>
> Any help with this on an urgent basis would be really appreciated. Sorry
> for being a little impatient :(.
>
12:58 PM Douglas N. Greve
wrote:
> Use the --avgwf output.table instead of --sum
>
> On 9/30/2020 1:48 PM, Martin Juneja wrote:
>
> External Email - Use Caution
> Dear Doug,
>
> Thanks for your response. I created a binary mask and ran the following
> command,
the
correct flag here?
Thanks.
On Wed, Sep 30, 2020 at 1:04 PM Martin Juneja wrote:
> 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
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Dear experts,
I used Yeo's 17-network parcellation to study the association between
network-wise cortical volume and a clinical variable in adolescents. I
received the following two questions from the reviewers regarding the use
of Yeo's atlas. I would
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Hi all,
I am reposting my concerns below. I would really appreciate any help.
-- Forwarded message -
From: Martin Juneja
Date: Fri, Jun 18, 2021 at 6:16 PM
Subject: Yeo atlas for children!
To: Freesurfer support list
Dear experts
reasonable to use a
> functional atlas where the default network is well defined. If you use a
> structural atlas like the Desikan-Kiliany atlas, then you will still need
> to use a functional atlas to roughly assign the Desikan-Kiliany parcels to
> the default network, which does not seem
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Dear Thomas and FreeSurfer experts,
Here I am just reposting my question below - just in case this was missed
by the experts. Any help would be really appreciated.
-- Forwarded message -
From: Martin Juneja
Date: Sat, Jul 10, 2021 at
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Hi FreeSurfer experts,
We submitted a paper where we used Yeo's 7-network atlas to estimate the
hemispheric mean cortical volume of each network using mri_annotation2label
--subject X --hemi lh --annotation Yeo2011_7Networks_N1000 --labelbase
Left_7Ns
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Hello FreeSurfer experts,
In my case-control study, I have a dataset of 5 healthy controls (HCs) and
one patient (PAT). I was wondering if there is any way to perform GLM for
PAT > HCs on brain morphometry data.
When I tried to follow instructions fro
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Hi FS experts,
I was wondering if someone could help me get the following issue resolved.
Thanks.
-- Forwarded message -
From: Martin Juneja
Date: Fri, Dec 8, 2023 at 11:03 AM
Subject: Case-controls study !
To: Freesurfer support
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Greetings FreeSurfer community,
I was just wondering if it's possible to perform vertex/voxel lesion
symptom mapping (VLSM) using FreeSurfer? In other words, I would like to
assess the impact of lesion topography (of course, heterogenous locations
acro
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Dear FreeSurfer community and experts,
I would greatly appreciate any help/response with the following.
Thanks.
-- Forwarded message -
From: Martin Juneja
Date: Wed, Jan 31, 2024 at 7:51 PM
Subject: Vertex / voxel lesion symptom
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Dear Juan and FreeSurfer developers,
I am trying to run the *mri_synthsr *command on a MacPro M2 Max chip (OS
13.6.4) - but somehow, I am getting the following error when I try to run
this command. I am using FreeSurfer's 7.4.1 version.
*Illegal instr
-7OR0ZajBrz3jJMaAXx2tGeFbJuIT_cwpTPX2u7uVcKu40byzK3CksUD9sBXUODMzo1dWFYJ7dqv9jzjPyhXiM51d49k7iGamx_SlWvcrdjka0R328JXdXbqwiXqt2FEwAVsz1ioBdFbSPNdth73sqgmm1hDt5vQsBMMp8Txr8bGJeZxE6q-ZHf8yqwxiFsXOOVtBw/https%3A%2F%2Fwww.ncbi.nlm.nih.gov%2Fpmc%2Farticles%2FPMC9724189%2F).
On Fri, Feb 23, 2024 at 10:27 AM Douglas N. Greve
wrote:
> Sorry, don't know what VLSM is. Can you elaborate?
>
> On 2/6/2024 3:19 PM, Martin Juneja wrote:
>
&
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