http://windhoff.net/wiki/ 2010-09-07T17:54:39+02:00 http://windhoff.net/wiki/ http://windhoff.net/wiki/lib/images/favicon.ico text/html 2010-09-07T12:01:20+02:00 http://windhoff.net/wiki/default_sidebar_left?rev=1283853680 * Start * How to's * Comments text/html 2010-05-19T22:26:00+02:00 http://windhoff.net/wiki/dti_coregistration?rev=1274300760 Here I document my workflow for coregistration of DTI data to anatomical scans using FSL. Feel free to make annotations and comments. I have one T2 weighted image (volume 0) and 64 diffusion weighted images (DWI) (volumes 1-64) in a 4D-NIfTI file with 128x128x96 1.5mm isovoxels. Also a T1 image with a good brain extraction (gray matter) with 256^3 1mm isovoxels and a CSF mask. text/html 2010-07-29T16:19:39+02:00 http://windhoff.net/wiki/getfem?rev=1280413179 text/html 2010-08-30T18:47:35+02:00 http://windhoff.net/wiki/guestbook?rev=1283186855 For junk entries please use this Playground Guestbook. New Entry Comments On Mon, 30 Aug 2010 18:47:35 +0200 testo teste@tesrer.com wrote: testa On Sun, 29 Aug 2010 08:27:19 +0200 cacho wrote: Este es mi primer comentario On Fri, 27 Aug 2010 09:59:25 +0200 Test wrote: text/html 2010-07-29T16:33:59+02:00 http://windhoff.net/wiki/how_to?rev=1280414039 how_to index text/html 2010-08-14T00:16:59+02:00 http://windhoff.net/wiki/matlab?rev=1281737819 ndgrid vs repmat % get coodinates of points on a grid within a sphere r=5; % 5 voxels radius circle_points=[repmat([-r:r]',(2*r)^2,1) reshape(repmat(-r:r,2*r,2*r),(2*r)^3, 1) reshape(repmat(-r:r,(2*r)^3,1),(2*r)^3,1)]; %% the above statement can be simplified as: [x,y,z]=ndgrid(-r:r,-r:r,-r:r); circle_points=reshape(cat(4, x, y, z),(2*r+1)^3,3); % remove points that are out of the radius range circle_points=circle_points(sum(circle_points.^2,2)<=r^2); text/html 2010-08-27T00:25:43+02:00 http://windhoff.net/wiki/playground_sidebar_left?rev=1282861543 * Start * Playground Comments text/html 2010-08-23T16:08:27+02:00 http://windhoff.net/wiki/start?rev=1282572507 Here we collect some notes, how to's and other stuff. All pages can be found here in the overview. The template of this DokuWiki can be found here. This DokuWiki instance is an animal of a symlink-farm, created as described here. Comments verygoodtemplatethanksforit text/html 2010-07-12T18:51:27+02:00 http://windhoff.net/wiki/tmslab?rev=1278953487 How to receive a working copy of the source code (using command line): # now go the the path, where the tmslab folder should be created cd /desired/path/ # checkout svn co https://svn.tuebingen.mpg.de/tmslab --username <username> # commit changes svn ci -m "comment for the changes" # update to newest version svn up text/html 2010-04-01T18:20:14+02:00 http://windhoff.net/wiki/top_navigation?rev=1270138814 * mail.windhoff.net * windhoff.net * mirko.windhoff.net