: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] HypoIntense Lesions
no, segmenting lesions is hard and can't be done with a simple threshold
On
Fri, 26 Jul 2013, Fotiadis, Panagiotis wrote:
> Hi Bruce,
>
> I see. In that case, do you happen to know if there is another way to get
&
hold instead of a
> match?
>
> Thanks again,
> Panos
>
> From: Bruce Fischl [fis...@nmr.mgh.harvard.edu]
> Sent: Friday, July 26, 2013 12:18 PM
> To: Fotiadis, Panagiotis
> Cc: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer
26, 2013 12:18 PM
To: Fotiadis, Panagiotis
Cc: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] HypoIntense Lesions
Hi Panos
when you run it with the orig you are getting voxels that happen to have
an intensity of 77 and have nothing to do with lesions. Run it on the
aseg
Bruce
On Fri, 26
gt;
> Thank you for your time.
> Panos
>
> From: Fotiadis, Panagiotis
> Sent: Monday, June 10, 2013 4:03 PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: RE: [Freesurfer] HypoIntense Lesions
>
> Great, thank you!
>
>
a way to get clusters with
orig.mgz as input?
Thank you for your time.
Panos
From: Fotiadis, Panagiotis
Sent: Monday, June 10, 2013 4:03 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: RE: [Freesurfer] HypoIntense Lesions
Great, thank you!
Panos
Sent: Monday, June 10, 2013 12:18 PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] HypoIntense Lesions
>
> On 06/10/2013 12:12 PM, Fotiadis, Panagiotis wrote:
>> Hi Doug and Bruce,
>>
>> Don't worry about it! Actually, Bruce, tools for labeling hypo-int
--in wmhypo.mgz --thmin .5. The number and
> volume of each lesion will be in the summary file
> doug
>> Thanks for your help,
>> Panos
>>
>> From: Bruce Fischl [fis...@nmr.mgh.harvard.edu]
>> Sent: Monday, June 10, 2013 11:52 AM
>> To: Fotiadis, P
...@nmr.mgh.harvard.edu]
Sent: Monday, June 10, 2013 12:18 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] HypoIntense Lesions
On 06/10/2013 12:12 PM, Fotiadis, Panagiotis wrote:
> Hi Doug and Bruce,
>
> Don't worry about it! Actually, Bruce, tools for labeling hypo-intense T1
__
> From: Bruce Fischl [fis...@nmr.mgh.harvard.edu]
> Sent: Monday, June 10, 2013 11:52 AM
> To: Fotiadis, Panagiotis
> Cc: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] HypoIntense Lesions
>
> Hi Panos
>
> sorry, forgot to respond to this. We have to
f the volume (or the
volume that corresponds to each lesion)?
Thanks for your help,
Panos
From: Bruce Fischl [fis...@nmr.mgh.harvard.edu]
Sent: Monday, June 10, 2013 11:52 AM
To: Fotiadis, Panagiotis
Cc: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Frees
Hi Panos, not in an SWI scan. The aseg.stats file created by recon-all
will give you WM hypointensities based on the T1.
doug
On 06/10/2013 11:50 AM, Fotiadis, Panagiotis wrote:
> Hi FreeSurfer Community,
>
> I was wondering whether there is an automatic tool that outlines the
> hypointense lesi
Hi Panos
sorry, forgot to respond to this. We have tools for labeling
hyper-intense T2/hypo-intense T1. Not sure about the hypointense SWI. It
might work on those if you also had a good T1 and some training data. Doug
might know
cheers
Bruce
On Mon, 10 Jun 2013, Fotiadis, Panagiotis
wrote:
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