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Hi thanks that worked perfectly! Greatly appreciated.
On Wed, Apr 22, 2020 at 6:39 PM Douglas N. Greve
wrote:
> oops, gave you the wrong formula. Try this (should just be the inverse)
> stderr = sqrt((ces.^2)./F);
>
> On 4/22/2020 5:46 PM, Graduate I
Hello,
I'm trying to generate surface meshes for different brain regions that can
be imported into a software like MeshLab or Blender (i.e. .STL, .PLY, .OBJ,
etc.). I ran recon-all on my T1 images, and the parcellation/segmentation
looks fine. However, I noticed that when I imported this data into
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Hi Aleksandr,
You could try making a minimal container with reprozip
https://www.reprozip.org/
Only recon-all should be less than a Gb.
-Paul
On Wed, Apr 22, 2020 at 5:31 PM Hoopes, Andrew
wrote:
> I don’t have an exact number, but I believe the
If it is just 1mm3, then you can use the standard recon-all, but it is
not guaranteed to work on the UNI or INV1 or INV2
On 4/18/2020 4:26 AM, Tali Weiss wrote:
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Dear FreeSurfer Developers,
1. I have mp2rage on 7T (Siemens, MAGNETOM Terra) resolution 1
I put one here that can go up to 80k
https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit.80k
On 4/21/2020 3:15 PM, Inge Amlien wrote:
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Hi Doug,
three years later and an order of magnitude more subjects.
Any chance you could raise the limit of maximu
oops, gave you the wrong formula. Try this (should just be the inverse)
stderr = sqrt((ces.^2)./F);
On 4/22/2020 5:46 PM, Graduate Imaging wrote:
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Hi Dr. Greve, thanks for getting back to me. I was able to
successfully run that as apart of the command howev
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Hi Dr. Greve, thanks for getting back to me. I was able to successfully run
that as apart of the command however the stderr appears to be too small.
The first 6 beta values range from 25000 to 3 however the stderr is
only 0.0003. From the raw result
I don’t have an exact number, but I believe the minimal compiled distribution
is less than 2GB.
Andrew
From: on behalf of Ерохин Александр
Reply-To: Ерохин Александр , FS Help
Date: Wednesday, April 22, 2020 at 12:35 PM
To: FS Help
Subject: Re: [Freesurfer] (no subject)
External E
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Great, thank you! Do you have any idea around when that feature will be added?
Thanks again
From: freesurfer-boun...@nmr.mgh.harvard.edu
on behalf of Lilla Zollei
Sent: Wednesday, April 22, 2020 3:02 PM
To: Freesurf
Yes, I would like to add it.
Lilla
On Wed, 22 Apr 2020, COLLEEN PLETCHER wrote:
Ok, thank you! Do you think this option will eventually be added?
When you run fast_fratio, include a 3rd output (so [F pvalues ces] =
...), then the stderr for the contrast is
stderr = sqrt(F./(ces.^2));
Select the contrast to isolate each group
On 4/21/2020 5:54 PM, Graduate Imaging wrote:
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Hi FreeSurfer experts,
I ra
sorry, what question? Please include previous emails
On 4/21/2020 11:43 PM, Billah, Tashrif wrote:
Hello Douglas,
Waiting to hear back from you on my question
Thanks,
Tashrif
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Ok, thank you! Do you think this option will eventually be added?
From: freesurfer-boun...@nmr.mgh.harvard.edu
on behalf of Lilla Zollei
Sent: Wednesday, April 22, 2020 2:26 PM
To: Freesurfer support list
Subject: R
Hi Colleen,
The manual editing option has not yet been added to the pipeline.
Best, Lilla
On Wed, 22 Apr 2020, COLLEEN PLETCHER wrote:
>
> Hello. I am working with the infant Freesurfer pipeline. I have noticed that
> some of our subjects may need to be manually edited, and then run through t
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Hello. I am working with the infant Freesurfer pipeline. I have noticed that
some of our subjects may need to be manually edited, and then run through the
pipeline again. However, when I try to do an infant_recon_all command combined
with something l
No no sorry for the misunderstanding. Either you correct by division with
subic_vol = average_eTIV_allsample * subic_vol / eTIV_subject
OR y0ou correct by regression. Only if you do regression, I’d use (eTIV_subject
- average_eTIV_allsample) rather than eTIV_subject directly (and the same for
all
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Hi Andrew,
Alright, many thanks for the hint! I started experimenting myself with file
exclusion, but is seems I've excluded too much and recon-all is not able to
complete successfully anymore.
Regarding this MINIMAL flag option — could you please
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Dear Eugenio,
Thank you for your quick response. Sorry but I am not completely sure if I
understood correctly your response. What do you mean with "demeaning" the
eTIV first?.
If I understood, a good choice would be to correct the subic_volume before
Hi Steve,
It looks good except for using the mean eTIV of the subgroup. Please use the
global average or don’t multiply by anything at all.
Multiplying by the global average has the cosmetic effect of giving you a
volume that is the range of subiculum volumes (rather than fractions <<< 1),
but
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Dear Freesurfer experts,
I would like to perform a correlation between the volume of subiculum and
some behavioural measures. Before making that correlation, is it necessary
to correct the subiculum volume with the eTIV? I have thought of doing it
by s
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