Hi Trisanna
let's take a step back - what exactly are you trying to achieve? If it is
to make a map of the probability that a fold occurs at a specific location
then you should not be smoothing at all. And I don't understand why you
would be labeling a fold in the volume - why not just label i
Okay then we’re having an issue somewhere along the line. Using the
cache.th40.neg.y.ocn.dat file to make a csv file, we pulled out the individual
values and compared across groups using a linear regression in R and didn’t
find a group difference for each cluster. Any thoughts as to why that m
After some digging I found this thread where someone was having a similar
issue, so I can give this matlab code you posted a try.
http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg32951.html
From: freesurfer-boun...@nmr.mgh.harvard.edu
on behalf of
Running that code it turns up these values:
pvalues =
1.0e-04 *
0.20840.1849
While the p-values are 0.1340 and 0.02200 respectively in the summary file, why
the difference?
From: Hilton, Benjamin Taylor
Sent: Thursday, May 25, 2017 2:43:35 PM
To: f
Dear Freesurfer expert;
I'm new to Freesurfer and confused about the workflow ..
I am trying to create cortical surface mesh consisted of percolated areas, and
have done manual percolation by creating my own labels and .annot file
I don't know what is the next step to get the parcellated hemisph
To FreeSurfer team,
I have child MRI data for which it would be best to use a pediatric
atlas/template for warping, alignment, and labeling. I am aware of the
Haskins Pediatric Atlas that AFNI includes as an optional dataset for this
purpose in the FreeSurfer anatomical rendering it performs be
Hi all,
I'm trying to figure out a way to do create seed-based structural covariance
networks through Freesurfer like the one shown in the link below. From the
images, it looks like it's done through QDEC. Any tips how to get started?
https://ww5.aievolution.com/hbm1601/index.cfm?do=abs.viewAbs
Not sure what you did. Sound like you found the max vox from the
cluster, then extracted the values from each subject and ran those
values through the glm to compare p-values against those in the summary
file. Right? Now, which values from the summary file are you comparing
against? The cluster
I could not follow what they did in the abstract. I don't think it is a
tool that we offer in FS. Try contacting them directly
On 05/25/2017 05:09 PM, Huang, Caleb (NIH/NINDS) [F] wrote:
> Hi all,
>
> I'm trying to figure out a way to do create seed-based structural
> covariance networks throug
try $FREESURFER_HOME/matlab/read_annotation.
On 05/25/2017 03:21 PM, Almarshad F. wrote:
>
> Dear Freesurfer expert;
>
> I’m new to Freesurfer and confused about the workflow ..
>
> I am trying to create cortical surface mesh consisted of percolated
> areas, and have done manual percolation by c
On 05/24/2017 03:30 PM, gaubert wrote:
> Hello,
>
> I am performing a group analysis to compare the cortical thickness
> between controls and patients (in fsaverage space with a smooth of 15)
> and I obtain two clusters. I want to extract the average cortical
> thickness in these clusters for eac
That looks right. You can use 1/6 instead of 1/3, but that will not make
a difference in the final p-values
On 05/24/2017 11:00 AM, Worker, Amanda wrote:
>
> Hi all,
>
>
> I have a repeated measures design with two groups (drug and placebo)
> and two time points (baseline and follow-up). The g
what is going wrong?
On 05/22/2017 12:11 PM, Tabassi Mofrad, F. wrote:
> Hi,
>
> I have a question about software input.
>
> --ntp 340 --tr 1.8 --psdwin 0 20 1.8 --ev L1 1.6 60 --ev L2 1.6 60
> --ev Blank 1.6 15 --evc 1 -1 0 --nkeep 3 --o IAPS --tnullmin 2
> --tnullmax 5.6 --nsearch 1
>
>
On 25 May 2017 at 01:20, Ramesh Babu wrote:
> There is some response for cudadetect command which I have pated in earlier
> mail. But no ./cudadetect file.
>
> rb@rameshbabu:~$ ./cudadetect
> bash: ./cudadetect: No such file or directory
That's... not altogether surprising.
> rb@rameshbabu:~$ l
Dear Doug
After I add --debug like this: mri_glmfit-sim --debug --glmdir
lh.gender_age.glmdir --cache 3 abs --cwp .999 --2spaces
The terminal output is shown in the attached file.
A bit overview about my analysis: I have 148 subjects that I am interested
in analyzing the gender and cortical thic
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