---------- Forwarded message ----------
From: Linn Christin Bonaventure Norbom <linnnorbom@gmail.com>
Date: Mon, Feb 3, 2014 at 5:44 PM
Subject: Re: [Freesurfer] Difficulties with including hypo-intense areas (MS-lesions) as white matter without additionally transforming the lesion into "normal white matter".
To: Bruce Fischl <fischl@nmr.mgh.harvard.edu>

Hi again,

Sorry for being unclear.

Here is a picture of the lesion. If I understand correctly it is now NOT included as white matter. All I want to do is include it as white matter, so that it will be registered as a hypo-intense area in aseg.stats.

So the way to do this is to edit the aseg.mgz and not the wm.mgz?

Cheers

Linn Norbom

On Mon, Feb 3, 2014 at 5:30 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:

Hi Linn
I'm not sure I understand, but if you can paste them into the aseg.mgz as hypointensities I think things should work properly

cheers
Bruce

On Mon, 3 Feb 2014, Linn Christin Bonaventure Norbom wrote:

Hi,

I would like to include unregistered hypo-intense lesions into white matter
(as now they are excluded from cortex, and not registered as anything)
without transforming the lesion from hypo-intense to normal (110). Is it
possible to include these areas in white matter and additionally keep the
statistic volume of these areas as hypo-intense-wm in the aseg.stats?

Thank you in advance,
Regards Linn Norbom

The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.