[caret-users] Macaque Landmarks

[Donna Dierker]

... this time with attachment

On 08/29/2008 08:31 AM, Donna Dierker wrote:
> On 08/27/2008 05:05 PM, MCLAREN, Donald wrote:
>> Does anyone have instructions for drawing the macaque landmarks?
> Donald,
>
> There is no monkey-specific registration tutorial since 2003 (Caret 
> 4.6), and that one was using now obsolete flat-based registration.  
> But Figure 8.5, p. 37 
> (http://brainmap.wustl.edu/caret/pdf/CARET_UsersGuide.03-06.Part-II.pdf) 
> shows the landmark labels of the major sulci on the flat map, which is 
> still useful for drawing borders for spherical registration.
>
> Monkey registration differs from human registration as follows:
>
> 1. You are not limited to the Core 6 landmarks.  Macaque anatomy is 
> much less variable than human anatomy is, so many more landmarks can 
> be used. Use as many as are provided in the atlas target dataset's 
> borderproj file (the ones named like "LANDMARK*"), but if one or more 
> landmarks leaves you feeling uncertain about the correspondence 
> between source and target, then delete that landmark in both source 
> and target borderproj files.  (Save the modified target borderproj by 
> a different filename, e.g., 
> "Macaque.F99UA1.R.LANDMARK_xPS.35946.borderproj" to denote that the PS 
> landmark was deleted.)
>
> 2. Use this target dataset:
>
> Macaque.F99UA1.REGISTER-with-INDIVIDUAL.73730.spec
> http://sumsdb.wustl.edu/sums/archivelist.do?archive_id=6589983
>
> All three borderproj options in this dataset can be used for both 
> right and left hems, since they are averages of both.  See attached 
> listing of the comments and landmark borders listed in each borderproj 
> file.  For discussion of the target options, see the September 2006 
> tutorial:
>
> http://sumsdb.wustl.edu/sums/directory.do?dir_id=6585200
>
> 3. There is no monkey equivalent of the "Caret5 Spherical Registration 
> Core 6 Landmark Set" page 
> (http://brainvis.wustl.edu/help/landmarks_core6/landmarks_core6.html).  
> Since macaques are less variable than humans, it is easier to 
> establish correspondence between source and target -- even at the 
> landmark terminations.  As described in 1 above, delete/trim any 
> landmarks where correspondence is shaky.
>
> 4. For monkey to human landmarks, see Part 4 of the Sept 2006 tutorial 
> (link above). The notes near the top of p. 62 are especially relevant.
>
> Though not different from human, remember:
>
> * Use spherical registration -- not flat.
>
> * Source and target borderproj files must have the same number of 
> borders, and they must be named identically.
>
> Donna
>
>

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