BrainVISA

Yes, the .trm file is created by the anatomical pipeline in BrainVisa. The Raw T1 MRI image I am using is 256x256x120 matrix ( or 256x256x144mm). When I played with the translation values in the .trm file (and applied AimsResample) I was able to get a fuller brain (though still looks shifted). I am ...

Hi, After running my data throught the analysis pipeline, I have a 4x3 *.trm matrix. I want to apply the transformation matrix to the Raw T1 MRI image to generate talairach T1MRI for each subject. I did the following /tools/brainvisa/bin/AimsResample -i study2.ima -m TALAIRACH-ACPC.trm -o transforme...

Thanks Denis. So BrainVisa uses a standard talairach base template to do the scaling. I want to recreate/output the talairached brain from BrainVisa to use in my group analysis, I wanted to know where these scaling values are stored. The .trm file only contains the translation and rotation values.

Is there a scaling of the brain that is done for talairaching? I read that BrainVisa uses the 3 points AC, PC, IH and a bounding box for talairaching, what is this bounding box?

Is there a scaling of the brain that is done for talairaching? You mentioned that BrainVisa uses the 3 points AC, PC, IH and a bounding box for talairaching, what is this bounding box?

Thanks. I think my question was more basic. You mentioned in your reply,"If you set the view in the Talairach-AC/PC referential, you will get coords in this system."...."Our Talairach-AC/PC coords system has the same orientation as described above for volumes. But its origin is on AC,...

Thanks. Also, what are the xyz dimensions of the talairached transformed image while viewing it in Anatomist. My original input image was 256x256x120. On scrolling in each plane in Anatomist (with talairach transformation as the referential), I have sagittal going from 0 to 385, coronal from 0 to 39...

Thanks. Can you give me a description on how BrainVisa does the talairach transformation given then AC, PC, interhemispheric, and left hemispheric end points? Also, is there a way to generate/output the talairach transformed image given the transformation matrix?so far we have been talking of only b...

Hello, I have been using BrainVisa 3.1 for a while now to create split mask for my data. Now I am interested in using the Talaraich transformation matrix (created as part of the pipeline) to get my data into talairach coordinates. Now I want to do the following: 1) view the data in talairach coordia...