[caret-users] Viewing multiple functional maps

[Alex Fornito]

Thanks David,
Is it possible to use the same palettes for the paint files as for  
the metrics? I don't seem to be able to find a way.


On 22/10/2007, at 1:28 AM, David Van Essen wrote:

> Alex, Stephanie, et al.,
>
> 1) Stephanie's RGB suggestion provides one excellent option for you  
> to check out.
>
> 2) Another set of options is to use the Surface: ROI window, which  
> allows you flexibility in selecting various regions using data in a  
> metric column.  Then use the Surface ROI: Operate on Selected Nodes  
> menu to draw borders around the ROI or to assign the ROI to an  
> existing or new paint column.
>
> 3) If you'd like to have side-by-side viewing of different metric  
> columns in different windows (which is quite handy for a lot of  
> purposes), then do the following:
> i) Make multiple copies of the coord file for the surface  
> configuration you want to view (e.g., save the very inflated coord  
> file with  'copy2' and 'copy3' inserted into the file name.
> ii) view a separate copy of the desired configuration in each Caret  
> window.
> iii) In the Page Selection: Metric Selection window, use the  
> Surface Coloration Applies To: pulldown menu to assign a different  
> metric column to each coord file.  Up to 10 different columns can  
> then be viewed concurrently in this way, and similar options are  
> available for surface-shape and paint files/columns.
>
> You can use the node ID option to highlight locations of interest  
> that show up in all windows.
>
> 4) If you use any of these approaches and get displays that you  
> find useful and want to return to in the future, don't forget to  
> generate a 'scene' and save the scene file.  This can save huge  
> amounts of time in later stages of analysis and in preparing and  
> revising figures.
>
> 5) Finally, regarding documentation, there are a number of Caret- 
> related resources that provide help with questions like this.   
> Within Caret, the Menu: Help offers quick access to (i) 'Caret  
> Help', which  has extensive documentation and tutorials; (ii) Caret  
> Tips; and (iii)  Search Caret Website, which provides a google-like  
> search of online Caret resources.
>
> If there are additional suggestions for analysis capabilities  
> needed or improvements to the search and tutorial capabilities, let  
> us know.
>
> David
>
> On Oct 21, 2007, at 12:28 AM, Stephane Jacobs wrote:
>
>> Hi Alex,
>>
>> I've only work a little with Caret myself, so there might be a  
>> better way... Anyway, you can convert metrics files to an RGB  
>> paint file, using up to 3 contrasts of your metrics at a time.  
>> Just go in Attributes/Metrics/Convert a Metrics file to RGB paint,  
>> or something like that. Then you select each contrast you want to  
>> display as red, blue and/or green, and the overlap will  
>> automatically be coded depending on the primitive colors of the 2  
>> (or 3) contrasts overlapping.
>>
>> Hope this helps,
>>
>> Stephane
>>
>> --
>> Stephane Jacobs
>> Human Neuroimaging and Transcranial Stimulation Lab
>> 36 Straub Hall, 1227 University of Oregon
>> Eugene, OR 97403 - USA
>> Email: sjacobs at uoregon.edu
>> Tel: (1) 541-346-4184
>>
>> On Sun, 21 Oct 2007 10:56:08 +1000 (EST), Alexander Fornito  
>> <fornitoa at unimelb.edu.au> wrote:
>>> Hi all,
>>> Is there anyway to view more than one functional map (i.e., stat  
>>> image) on
>>> the PALS atlas simultaneously?
>>> I have mapped the results of a series of contrasts onto the atlas  
>>> and now
>>> have a .metric file with each contrast as a different column.  
>>> However, I
>>> only seem to be able to view one contrast at a time.
>>> I can't seem to find any documentation on this.
>>> Ultimately, I would like to overlay two maps simultaneously (each  
>>> coloured
>>> using a different palette).
>>> Also, if it is possible to view >1 map at the same time, is there  
>>> some
>>> option to colour areas of overlap between the maps differently?
>>> Thanks for your help,
>>> Alex
>>>
>>>
>>>
>>> Alex Fornito
>>> JN Peters Research Fellow
>>> Melbourne Neuropsychiatry Centre
>>> National Neuroscience Facility
>>> The University of Melbourne
>>> Levels 2 & 3, 161 Barry St
>>> Carlton South 3053 Vic Australia
>>> Ph:    +61 3 8344 1861
>>> Fax:   +61 3 9348 0469
>>> Email: fornitoa at unimelb.edu.au
>>>
>>>
>>> _______________________________________________
>>> caret-users mailing list
>>> caret-users at brainvis.wustl.edu
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>>>
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Alex Fornito
JN Peters Research Fellow
Melbourne Neuropsychiatry Centre
Department of Psychiatry
The University of Melbourne

Melbourne Neuropsychiatry Centre
National Neuroscience Facility
Levels 2 & 3, 161 Barry St
Carlton South Vic 3053 Australia

Phone:	+61 3 8344 1861
Fax:		+61 3 9348 0469
Email:	fornitoa at unimelb.edu.au

www.psychiatry.unimelb.edu.au/mnc



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