[MINC-users] Anatomical labelling of MINC files
D. Louis Collins
louis.collins@mcgill.ca
Sat Nov 27 06:47:04 2004
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Just to confirm for ANIMAL+auto labeling... The target files have been
packaged. We still need to rope up and package the label files and the
stx_segment script.
-Louis
On 11/26/04 10:39 AM, "Jason Lerch" <jason@bic.mni.mcgill.ca> wrote:
> Hello Chris,
>
> here's an attempt to answer some of your questions:
>
>
> On Nov 26, 2004, at 5:37 AM, Christopher Bailey wrote:
>
>>
>> Hi again, again,
>>
>> Though the issue of automagically assigning anatomical labels to MR's is
>> a hot potato, I'm curious to know how much such functionality will be
>> included in the MINC tools in the future?
>
> We do have automatic labelling, and have had it since the mid nineties in the
> ANIMAL package.
>
> Collins, D. L., C. J. Holmes, T. M. Peters and A. C. Evanc (1995). "Automatic
> 3D model-based neuroanatomical segmentation." Human Brain Mapping 3(3):
> 190-208.
>
> As I understand it, the missing pieces will be available for download soon
> (they just have to be packaged up).
>>
>> Following up on my PET-post, I would like to address the related issue
>> of production of Pretty Pictures for publications. Now that FreeSurfer,
>> Caret/SureFit and Brainvoyager are churning out inflated/flattened maps
>> at an alarming rate, the Marching Cubes of Display seems a bit quaint. I
>> think the MINC community would embrace something that could produce,
>> say, an Anatomic Segmentation using Proximities.................
>
> I'm not quite sure what you mean - we certainly have the ability to generate
> surfaces, we have the ability to inflate those surfaces, and we have a
> ray-tracer available to generate pictures from all the above. No flat-maps,
> though one can argue about their usefulness anyway. What in particular did you
> find missing?
>
> As for the state of dot - I hope somebody else answers that, as I don't know
> much about PET analysis.
>
> Cheers,
>
> Jason
>
>
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<TITLE>Re: [MINC-users] Anatomical labelling of MINC files</TITLE>
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<FONT FACE=3D"Verdana, Helvetica, Arial"><SPAN STYLE=3D'font-size:12.0px'>Just =
to confirm for ANIMAL+auto labeling... The target files have been packaged. =
We still need to rope up and package the label files and the stx_segme=
nt script.<BR>
<BR>
-Louis<BR>
<BR>
<BR>
<BR>
On 11/26/04 10:39 AM, "Jason Lerch" <jason@bic.mni.mcgill.ca&g=
t; wrote:<BR>
<BR>
</SPAN></FONT><BLOCKQUOTE><FONT FACE=3D"Verdana, Helvetica, Arial"><SPAN STYL=
E=3D'font-size:12.0px'>Hello Chris, <BR>
<BR>
here's an attempt to answer some of your questions: <BR>
<BR>
<BR>
On Nov 26, 2004, at 5:37 AM, Christopher Bailey wrote: <BR>
<BR>
</SPAN></FONT><BLOCKQUOTE><FONT FACE=3D"Verdana, Helvetica, Arial"><SPAN STYL=
E=3D'font-size:12.0px'> <BR>
Hi again, again, <BR>
<BR>
Though the issue of automagically assigning anatomical labels to MR's is <B=
R>
a hot potato, I'm curious to know how much such functionality will be <BR>
included in the MINC tools in the future? <BR>
</SPAN></FONT></BLOCKQUOTE><FONT FACE=3D"Verdana, Helvetica, Arial"><SPAN STY=
LE=3D'font-size:12.0px'> <BR>
We do have automatic labelling, and have had it since the mid nineties in t=
he ANIMAL package. <BR>
</SPAN></FONT><SPAN STYLE=3D'font-size:12.0px'><FONT FACE=3D"Geneva, Verdana, H=
elvetica, Arial"> <BR>
Collins, D. L., C. J. Holmes, T. M. Peters and A. C. Evanc (1995). "Au=
tomatic 3D model-based neuroanatomical segmentation." <U>Human Brain Ma=
pping</U> 3(3): 190-208. <BR>
<BR>
As I understand it, the missing pieces will be available for download soon =
(they just have to be packaged up). <BR>
</FONT></SPAN><BLOCKQUOTE><SPAN STYLE=3D'font-size:12.0px'><FONT FACE=3D"Verdan=
a, Helvetica, Arial"> <BR>
Following up on my PET-post, I would like to address the related issue <BR>
of production of Pretty Pictures for publications. Now that FreeSurfer, <BR=
>
Caret/SureFit and Brainvoyager are churning out inflated/flattened maps <BR=
>
at an alarming rate, the Marching Cubes of Display seems a bit quaint. I <B=
R>
think the MINC community would embrace something that could produce, <BR>
say, an Anatomic Segmentation using Proximities................. <BR>
</FONT></SPAN></BLOCKQUOTE><SPAN STYLE=3D'font-size:12.0px'><FONT FACE=3D"Verda=
na, Helvetica, Arial"> <BR>
I'm not quite sure what you mean - we certainly have the ability to generat=
e surfaces, we have the ability to inflate those surfaces, and we have a ray=
-tracer available to generate pictures from all the above. No flat-maps, tho=
ugh one can argue about their usefulness anyway. What in particular did you =
find missing? <BR>
<BR>
As for the state of dot - I hope somebody else answers that, as I don't kno=
w much about PET analysis. <BR>
<BR>
Cheers, <BR>
<BR>
Jason <BR>
<BR>
<BR>
</FONT></SPAN></BLOCKQUOTE><SPAN STYLE=3D'font-size:12.0px'><FONT FACE=3D"Verda=
na, Helvetica, Arial"><BR>
</FONT></SPAN>
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