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Hi there,
Has anyone in this community used a form of inter-rater reliability measure for
multiple people editing for one project? I have some PIs who are interested in
doing this for a project where several labs will be editing Freesurfer for a
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Hi,
I'd like to confirm that the flag -bigventricles is a current flag that can be
used in version 7.2.0? I see the wiki updates but wanted to make sure the flag
works with this version as well as the 6.0
Thank you!
Lisa
}* | cut -d'_' -f2`
change it to
timepoints=`ls -d1 ${subid} _tp* | cut -d'_' -f2`
From: freesurfer-boun...@nmr.mgh.harvard.edu
On Behalf Of Taylor, Lisa
Sent: Tuesday, June 13, 2023 2:58 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] Error in longitudinal process step 3
...@nmr.mgh.harvard.edu
On Behalf Of Taylor, Lisa
Sent: Monday, June 12, 2023 3:18 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] Error in longitudinal process step 3
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Hi Yujing,
Yes, that is correct that 6008_tp1 is timepoint 1. Originally, I only had
the .lta files ouput from base process? If ‘6008’ is your base
templateid, you should find them in $SUBJECTS_DIR/6008/ mri/transforms/.
How are your cross recon-all commands?
Best,
Yujing
From: freesurfer-boun...@nmr.mgh.harvard.edu
On Behalf Of Taylor, Lisa
Sent: Thursday,
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Hi there,
I am trying to update my scripts on our university's HPC but am running into an
issue. I am not too savvy when it comes to this, so I apologize. My guess is I
will have to run my old 6.0 script but without the -hippocampal-subfields-T1
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Hi there,
Not exactly sure if you'll be able to help but I am a bit stumped. I recently
updated my MAC os to the new monterey update. I now get these error messages
when trying to use Freesurfer, or even freeview:
viewfreesurfer
jBU-cDQCO5MEaPfiRMPn7CCWFLfv_K0GM92Ej9Hl9Okq8_JWauU_pB5prviU5WPBsEQ_ZUZfkz052ZO1JTiy3tFdR0zJzxw99Z-ERgQ6PWGrIlHLes8SwkSw/https%3A%2F%2Furldefense.com%2Fv3%2F__http%3A%2F%2Fwww.jeiglesias.com__%3B%21%21OLgoXmg%21ACyo4RVHXSATkHMra8kVesEvPxFC51I_HPwwfE-QJvFQtVhzwd4MNLQGLYPwontwlgQ%24>
On Dec 10, 2021, at 14:19, Taylor, Lisa
mailto
YJ1-zxvPgFgK9ALC3Q7E0QHhb95p17uUATKECyNiqCj5DZDbWRjdjwBQGPzYqKwNBaCOrij9zL0IaHQsYX-oKHrDGqVbGw70sQ31G8YbvLxPLEd6hcw4G7NbhEJRnwyzjGIA3xQYSj_5wnjfLb_/https%3A%2F%2Furldefense.com%2Fv3%2F__http%3A%2F%2Fwww.jeiglesias.com__%3B%21%21OLgoXmg%21Bk3d3AdL3kcsK-4SYxHmwBqEccK3wF9ULrNZV2Hun_8hJvh279oie4WhXA46alLElsY%24>
On Dec 8, 2021, at 15:57, Taylor, Lisa
mailto
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Hi,
Sorry if this email has been seen. I got an automatic response that my previous
emails were in the queue waiting to be approved due to the email size, but
haven't seen an approval yet. So, I am trying again without the email
attachments (both
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Hi,
This is the first time I have encountered this problem. I have a participant
that has been through recon all, but when trying to create PET masks, the error
that comes up is that the 'brainstemSsLabels.v10.mgz' file is missing in the
MRI
, November 22, 2019 2:32 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] How do I fix this white matter boundary issue?
Is the ventricle properly segmented in the aseg.presurf.mgz? If not, try
running recon-all with -bigventricles
On 11/22/2019 2:21 PM, Taylor, Lisa Marie wrote
contrast, etc). I
ended up just discarding them.
Did you have a look at the raw files (DICOMs)? Do they look OK?
Tim
> On February 22, 2019 at 11:03 PM "Taylor, Lisa Marie"
> wrote:
>
>
> External Email - Use Caution
>
>
> Hi there,
>
> I a
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