[caret-users] beginner question

[David Van Essen]

Jessica,

On Jan 20, 2008, at 7:18 PM, jessica f cantlon wrote:

> I have a beginner's question about using caret to project foci to  
> the PALS atlas.  When I go to do that I get the message "These foci  
> do not have associated stereotaxic spaces:" and it lists all of  
> them, even though I have gone through and individually selected the  
> space format in the "Study Metadata Editor" for every study.  Is  
> there something obvious I'm not doing?

I suspect the problem is that the linkage between the individual foci  
and the corresponding studies is not complete.  Each focus gets linked  
to a unique study using the PubMed ID (PMID) number (or a ProjID that  
is automatically assigned if there is no PMID number).  If the  
individual foci all have a 'Name' entry that matches the Study Name,  
then you can automatically fill in all of the PMID numbers using:
Select Layers: Foci: Update Focus PubMed ID if Focus Study Name  
Matches Study Name, then select Confirm in the popup window.

This will populate the PubMed ID column with the PMID number (or the  
Project ID number if no PMID is available) and the stereotaxic space  
(if entered into the study file).

This step may not be adequately explained in the current tutorials, so  
we will try to get that fixed.

If this doesn't work, let us know; it might then become useful to take  
a look at your actual dataset.

As a heads-up, a number of important refinements are well underway  
with regard to stereotaxic foci.  One is that we are incorporating  
flexible 'Foci search' capabilities within Caret that are proving to  
be very helpful for comparisons across the 14,000 published foci  
currently accessible via SumsDB.  We are aiming to have a new Caret  
release and associated tutorial available in the late-winter/early- 
spring time frame.

David VE

>
>
> thanks,
> jessica
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