Hi Donna, I'm a little confused about coordinates of foci reported in the literature. In a study by Mechelli et al. (2005) [NeuroImage 30: 992-1002] the authors state that "the functional images were spatially normalized to a standard MNI-305 template using nonlinear-basis functions", but in the tables in which the coordinates are listed it says "Co-ordinates [x, y, z] are reported in Talairach space". There is no mention of a coordinate transformation from MNI to TT space. I had assumed that "reported in Talairach space" meant exactly that, but now I am unsure. I would appreciate it if you could clarify this for me. Thanks.
Terry Sewards ----- Original Message ----- From: <[EMAIL PROTECTED]> To: <caret-users@brainvis.wustl.edu> Sent: Wednesday, April 26, 2006 11:00 AM Subject: caret-users Digest, Vol 31, Issue 17 > Send caret-users mailing list submissions to > caret-users@brainvis.wustl.edu > > To subscribe or unsubscribe via the World Wide Web, visit > http://pulvinar.wustl.edu/mailman/listinfo/caret-users > or, via email, send a message with subject or body 'help' to > [EMAIL PROTECTED] > > You can reach the person managing the list at > [EMAIL PROTECTED] > > When replying, please edit your Subject line so it is more specific > than "Re: Contents of caret-users digest..." > > > Today's Topics: > > 1. Re: help needed (shantanu ghosh) > 2. Re: help needed (Donna Dierker) > > > ---------------------------------------------------------------------- > > Message: 1 > Date: Wed, 26 Apr 2006 10:35:58 +0100 (BST) > From: shantanu ghosh <[EMAIL PROTECTED]> > Subject: Re: [caret-users] help needed > To: "Caret, SureFit, and SuMS software users" > <caret-users@brainvis.wustl.edu> > Message-ID: <[EMAIL PROTECTED]> > Content-Type: text/plain; charset="iso-8859-1" > > Dear Caret support > How can I paint Talairach coordinates for different tasks with different colors onto a single cortical surface for illustration in metaanalysis? > thanks in advance, > shantanu > > > Shantanu Ghosh, PhD > Department of Humanities and Social Sciences > Indian Institute of Technology, Delhi > Hauz Khas > New Delhi 110016 > INDIA > Tel.: +91-11-2659 6589 > Fax: +91-11-2659 6509 > > > > > > --------------------------------- > Jiyo cricket on Yahoo! India cricket > Yahoo! Messenger Mobile Stay in touch with your buddies all the time. > -------------- next part -------------- > An HTML attachment was scrubbed... > URL: http://brainvis.wustl.edu/pipermail/caret-users/attachments/20060426/865b31a c/attachment-0001.html > > ------------------------------ > > Message: 2 > Date: Wed, 26 Apr 2006 08:37:09 -0500 > From: Donna Dierker <[EMAIL PROTECTED]> > Subject: Re: [caret-users] help needed > To: "Caret, SureFit, and SuMS software users" > <caret-users@brainvis.wustl.edu> > Message-ID: <[EMAIL PROTECTED]> > Content-Type: text/plain; charset=ISO-8859-1; format=flowed > > Hi Shantanu, > > There are a couple of ways to do this. If you're lucky enough to have > access to either a ROI or functional volume (e.g., AFNI +tlrc or FSL/SPM > avg152 space group statistical output maps), then you can map them onto > the PALS atlas using the procedure outlined in the PALS_B12 tutorial > > http://sumsdb.wustl.edu:8081/sums/directory.do?dir_id=6332260 > > If you just have a stereotaxic coordinate, then you can use the Layers: > Foci: Map Stereotaxic Focus feature. See page 43 of this tutorial: > > Caret 5.2 Tutorial - Introduction, Installation, Visualization, and > Registration > http://brainmap.wustl.edu/caret/pdf/Caret_5_12_Tutorial_Intro.pdf > > When doing metanalyses, one thing to keep in mind is that people use the > term Talairach loosely. They may call coordinates talairach, when > they're really in another stereotaxic space (e.g., icbm 152 or Wash U's > 711-2B). The PALS atlas contains several different average fiducial > surfaces (in the Caret data_files/fmri_mapping_fils directory) to > support various grids. See this link for more details: > > http://brainvis.wustl.edu/help/pals_volume_normalization/ > > When mapping foci or functional data, make sure you use the average > fiducial surface that most closely resembles the space of your > coordinates/volume. If they're different, then your results are garbage. > > On 04/26/2006 04:35 AM, shantanu ghosh wrote: > > > Dear Caret support > > How can I paint Talairach coordinates for different tasks with > > different colors onto a single cortical surface for illustration in > > metaanalysis? > > thanks in advance, > > shantanu > > > > > > Shantanu Ghosh, PhD > > Department of Humanities and Social Sciences > > Indian Institute of Technology, Delhi > > Hauz Khas > > New Delhi 110016 > > INDIA > > Tel.: +91-11-2659 6589 > > Fax: +91-11-2659 6509 > > > > ------------------------------------------------------------------------ > > Jiyo cricket on Yahoo! India cricket > > <http://us.rd.yahoo.com/mail/in/mailcricket/*http://in.sports.yahoo.com/cric ket/> > > Yahoo! Messenger Mobile > > <http://us.rd.yahoo.com/mail/in/mailmobilemessenger/*http://in.mobile.yahoo. com/new/messenger/> > > Stay in touch with your buddies all the time. > > > >------------------------------------------------------------------------ > > > >_______________________________________________ > >caret-users mailing list > >caret-users@brainvis.wustl.edu > >http://pulvinar.wustl.edu/mailman/listinfo/caret-users > > > > > > > -- > Donna L. Dierker > (Formerly Donna Hanlon; no change in marital status -- see http://home.att.net/~donna.hanlon for details.) > > > ------------------------------ > > _______________________________________________ > caret-users mailing list > caret-users@brainvis.wustl.edu > http://pulvinar.wustl.edu/mailman/listinfo/caret-users > > > End of caret-users Digest, Vol 31, Issue 17 > ******************************************* >
