I don't know. Perhaps you need to send me the data and commandline you are using for me to debug this.
http://brainvis.wustl.edu/cgi-bin/upload_matt.glasser.cgi Peace, Matt. _____ From: [email protected] [mailto:[email protected]] On Behalf Of Colin Reveley Sent: Sunday, July 08, 2012 12:13 PM To: Colin Reveley; [email protected] Subject: Re: [caret-users] Myelin :( Maybe there needs to be something in the nifti headers of one or more volumes that isn't? Although its already in perfect register, I will register my "t2" (mask of ones) to my T1 (mtr) using the procedureyou list. Perhaps that will impart header info that should be there. On Sunday, 8 July 2012, Colin Reveley wrote: I'm really, really sorry I can't figure this out. I made a ribbon as close to berts as I could using mri_ribbon to get the estimate of the gm on each side, and then manual manipulation to add them as one volume with the region inside coloured as berts wm. some bits between gyro that should be o are coloured as l or r wm, but not much. I can try to improve if that,s the issue. Now I get the same output from you as before, except that the nans are gone. It says volume threshold is 0 to 0 and everything falls outside threshold.q at least it isn't nan. It isn't only myelin I want to map actually. I want to map scalar maps from diffusion data, basically the Westin maps. I want to compare those to myelin as per mtr, in several data sets including some marmoset stuff. Maybe I need to start again in free surfer, and do it all at 1mm, and register to f99 again. It takes a long time. I may be able to get matlab code from someone that works on the same principle as yours and adapt it to make a caret metric. I may not though. I really can't see what's wrong now. What byte order should the volumes all have? What data type? Sorry :( not smart enough to figure out. Colin
_______________________________________________ caret-users mailing list [email protected] http://brainvis.wustl.edu/mailman/listinfo/caret-users
