From thomas.thesen@med.nyu.edu Tue Mar 15 14:08:46 2011 From: "Thesen, Thomas" To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] V1 prediction Date: Tue, 15 Mar 2011 14:08:39 -0400 Message-ID: MIME-Version: 1.0 Content-Type: multipart/mixed; boundary="===============8857464251203623247==" --===============8857464251203623247== Content-Type: text/plain; charset="utf-8" Content-Transfer-Encoding: quoted-printable Dear Freesurfer List, I ran the script for predicting V1 location on the surface: http://surfer.nmr.mgh.harvard.edu/fswiki/V1 According to the paper, the output should be a probability map, but the scrip= t only seems to produce a label file: $SUBJECT_DIR/label/?h.v1.prob.label . When I load this file (it only loads as 'label') it is a binary label, with n= o probability values associated with it. That means it is a pretty generous d= escription of predicted V1. How can I get probability values and trim it to, let's say, >80% probability? Thanks for your input. Thomas ------------------------------------------------------------
This email message, including any attachments, is for the sole use of the int= ended recipient(s) and may contain information that is proprietary, confident= ial, and exempt from disclosure under applicable law. Any unauthorized review= , use, disclosure, or distribution is prohibited. If you have received this e= mail in error please notify the sender by return email and delete the origina= l message. Please note, the recipient should check this email and any attachm= ents for the presence of viruses. The organization accepts no liability for a= ny damage caused by any virus transmitted by this email.
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From greve@nmr.mgh.harvard.edu Tue Mar 15 14:14:58 2011
From: Douglas N Greve 
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] V1 prediction
Date: Tue, 15 Mar 2011 14:14:58 -0400
Message-ID: <4D7FACA2.5070202@nmr.mgh.harvard.edu>
In-Reply-To:
 
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In tksurfer, try going to Tools->Label->Threshold Selected Label. Then 
choose a threshold between 0 and 1.
doug

Thesen, Thomas wrote:
>
> Dear Freesurfer List,
>
> I ran the script for predicting V1 location on the surface:
>
> http://surfer.nmr.mgh.harvard.edu/fswiki/V1
>
> According to the paper, the output should be a probability map, but 
> the script only seems to produce a label file: 
> $SUBJECT_DIR/label/?h.v1.prob.label .
>
> When I load this file (it only loads as ‘label’) it is a binary label, 
> with no probability values associated with it. That means it is a 
> pretty generous description of predicted V1.
>
> How can I get probability values and trim it to, let’s say, >80% 
> probability?
>
> Thanks for your input.
>
> Thomas
>
> ------------------------------------------------------------
> This email message, including any attachments, is for the sole use of 
> the intended recipient(s) and may contain information that is 
> proprietary, confidential, and exempt from disclosure under applicable 
> law. Any unauthorized review, use, disclosure, or distribution is 
> prohibited. If you have received this email in error please notify the 
> sender by return email and delete the original message. Please note, 
> the recipient should check this email and any attachments for the 
> presence of viruses. The organization accepts no liability for any 
> damage caused by any virus transmitted by this email.
> =================================
> ------------------------------------------------------------------------
>
> _______________________________________________
> Freesurfer mailing list
> Freesurfer(a)nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

-- 
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve(a)nmr.mgh.harvard.edu
Phone Number: 617-724-2358 
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html


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From fischl@nmr.mgh.harvard.edu Tue Mar 15 15:30:48 2011
From: Bruce Fischl 
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] V1 prediction
Date: Tue, 15 Mar 2011 15:30:47 -0400
Message-ID: 
In-Reply-To:
 
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Hi Thomas,

there is a tksurfer menu item to transfer the label stat field to an=20
overlay, and you can go from there.

cheers
Bruce

On Tue, 15 Mar 2011, Thesen, Thomas wrote:

> Dear Freesurfer List,
>
> I ran the script for predicting V1 location on the surface:
> http://surfer.nmr.mgh.harvard.edu/fswiki/V1
>
> According to the paper, the output should be a probability map, but the scr=
ipt only seems to produce a label file: $SUBJECT_DIR/label/?h.v1.prob.label .
> When I load this file (it only loads as 'label') it is a binary label, with=
 no probability values associated with it. That means it is a pretty generous=
 description of predicted V1.
> How can I get probability values and trim it to, let's say, >80% probabilit=
y?
>
> Thanks for your input.
>
> Thomas
>

> > > ------------------------------------------------------------
> This email message, including any attachments, is for the sole use of the i= ntended recipient(s) and may contain information that is proprietary, confide= ntial, and exempt from disclosure under applicable law. Any unauthorized revi= ew, use, disclosure, or distribution is prohibited. If you have received this= email in error please notify the sender by return email and delete the origi= nal message. Please note, the recipient should check this email and any attac= hments for the presence of viruses. The organization accepts no liability for= any damage caused by any virus transmitted by this email.
> =3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D= =3D=3D=3D=3D=3D=3D=3D=3D > > >

>

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