We collected a partial volume fMRI of posterior brain to image fusiform face area at high resolution.
We used the ZOOMit feature on our new 3 tesla Siemens Prisma scanner, which uses dynamic excitation pulses to achieve selective field of view imaging without aliasing artifacts.
I have tried to align the partial volume functional brik to the high res whole brain T1 volume collected during the same scan session using the commands below. These commands have worked for me on previous partial volume datasets acquired without ZOOMit and covering a larger extent of brain.
You may want to add “-deoblique off”, and I can’t really tell from the images if -edge is useful here. Try “-cost lpc+ZZ”. If you can’t find happiness, then you can upload some data with the instructions I have just PM’ed you.
The skullstripping doesn’t work well with this very, very partial data that is further limited by the fact that the most anterior and posterior coronal slices aren’t really useful. The example shows alignment of the anatomical to the EPI dataset sub-brick 0. I used the master_anat dataset to get the obliquity grid computed by 3dWarp, otherwise you can get too big a grid or one that’s cut off.
Sort of. The second one, should be the inverse transformation of the anat to epi, but not including any obliquity, motion correction or standard space transformation.
The
National Institute of Mental Health (NIMH) is part of the National Institutes of
Health (NIH), a component of the U.S. Department of Health and Human
Services.