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Dear FreeSurfer experts,
I simply do not understand the LME setup for longitudinal analyses.
Here is what I have: 3 groups each with variable longitudinal data (in terms of
umber of time points and interval between timepoints). I am interested in
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Hi,
I'm new to FreeSurfer and working my way through the tutorial on cluster
correction for multiple comparisons. I encountered an error with the --perm
flag at the simulation stage but I can't find any help online regarding this.
Here is the code
On 3/11/2020 4:21 PM, Hengameh Marzbani wrote:
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Thank you for the quick response.
question 1: I need the results of mri-glmfit (before doing mri-glmfit-sim). I
can see the clusters by tksurfer. But, Can I have a text file included all
clusters?
You can,
In par file for the A run, you say that the condition number is 1; in
the par file for run B, say that the condition is number 2 (so condition
2 does not appear in run 1's parfile, and condition 1 does not appear in
run 2's). The in mkcontrast-sess, just select -a 1 -c 2
On 3/11/2020 1:42
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Thank you for the quick response.
question 1: I need the results of mri-glmfit (before doing
mri-glmfit-sim). I can see the clusters by tksurfer. But, Can I have a
text file included all clusters?
question 3: I want to do the analyse by considering
Hi Jason - Please save the config file as a simple text file, not a rich text
file (rtf). When you view it with the more command on the command line, it
should just show you the text that you typed, and not all the other stuff.
Best,
Anastasia.
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Dear Mr. Greve
Thanks for your suggestions.
However I'm still a bit puzzled about how to contrast two runs corresponding to
different stimulations (StimA: runA and StimB:runB) from one subject.
I have two runs each containing a paradigm file
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Hello FreeSurfer developers,
When trying to run segmentHA_T1.sh with the dev version of FreeSurfer to
accomplish hippocampal subfield and amygdala subnuclei segmentation (see
FreeSurfer module
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That's exactly what I was looking for. Many thanks!
Dirk
Van: freesurfer-boun...@nmr.mgh.harvard.edu
namens Hoopes, Andrew
Verzonden: maandag 9 maart 2020 19:32:08
Aan: Greve, Douglas N.,Ph.D.;
What is the value for cerebellum in those three scenarious (gtm, no pvc,
and mgx)?
On 3/10/2020 12:37 PM, Eckbo, Ryan wrote:
Hello experts,
I've recently run into a case the gtmstats uptake (reference region:
cerebellum) for the pericarlcarine ROI's are as low as 0.40,
however computing the
You can use mri_concatenate_lta, or you could simply register the T2 to
the conformed space with bbregister
On 3/10/2020 9:06 PM, Yeun Kim wrote:
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Hi,
How do I concatenate the resulting recon-all transform with another
rigid transform to produce a single
You can fix the defect by hand. It is probably the cerebellum that is
hanging on
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/TopologicalDefect_freeview
On 3/10/2020 2:53 PM, Abraham Y wrote:
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Dear FreeSurfer developers,
I'm trying to apply
It will NOT affect any of the other files
On 3/10/2020 10:46 AM, Miguel Ángel Rivas Fernández wrote:
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Dear freesurfer experts,
Before running group analysis in qdec is necessary run the qcache
command over all subjects but, does this command change some
On 3/10/2020 9:58 AM, 邓刊 wrote:
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Dear freesurfer experts,
I have analyzed intra-group differences in cortical thickness using
QDEC. It generated the file sig.mgh.
1.I want to know what does the sig.mgh mean? Which p value and the
cluster size this
it should not really affect it
On 3/10/2020 10:22 AM, Tim Schäfer wrote:
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>
> Maybe Doug or Bruce should comment on that, but afaik that should not affect
> your analysis at all: recon-all will resample your data to 256x256x256 (as
> part of creating what
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