Re: [Freesurfer] How do I fix this white matter boundary issue? {Disarmed}

2019-11-26 Thread Taylor, Lisa Marie 
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This addressed my concern! Thank you for the insight.

From: freesurfer-boun...@nmr.mgh.harvard.edu 
[freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Greve, Douglas N.,Ph.D. 
[dgr...@mgh.harvard.edu]
Sent: Friday, 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:

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Hi there,

I am working on a participant that has abnormally large ventricles. This has 
previously posed an issue with freesurfer by failing with errors but I have 
been successful this cycle without the job failing. However, after my first 
round of edits and running recon-all there is a major issue with the WM and 
Pial boundary area. I am unaware of how to address it. I have attached images 
to highlight where my concern is. Any insight?

Thank you so much!

Lisa



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Re: [Freesurfer] How do I fix this white matter boundary issue?

2019-11-22 Thread Greve, Douglas N.,Ph.D. 
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:

External Email - Use Caution

Hi there,

I am working on a participant that has abnormally large ventricles. This has 
previously posed an issue with freesurfer by failing with errors but I have 
been successful this cycle without the job failing. However, after my first 
round of edits and running recon-all there is a major issue with the WM and 
Pial boundary area. I am unaware of how to address it. I have attached images 
to highlight where my concern is. Any insight?

Thank you so much!

Lisa



This message may contain confidential information and is for the sole use of 
the intended recipient(s). If you are not the intended recipient, do not use, 
distribute, or copy this e-mail. Please notify the UC Irvine Health – 
Compliance and Privacy Office via email at 
hacomplia...@uci.edu or by phone 888-456-7006 
immediately if you have received this e-mail in error. E-mail transmission 
cannot be guaranteed to be secure or error-free as information could be 
intercepted, corrupted, lost, destroyed, arrive late or incomplete, or contain 
viruses. The sender therefore does not accept liability for any errors or 
omissions in the contents of this message, which arise as a result of e-mail 
transmission.



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