Hi all,
I have a question for first_flirt.
initially I have tried run_first_all, but the segmentation didn't go well.
so I started to run FIRST step by step and to identify the problem.
the error occurred in the registration, first_flirt stage 2.
brain_to_std_sub_tmp_stage1.nii.gz was okay, but brain_to_std_sub_tmp_stage2.nii.gz was not.
the stage2 image looks like being zoomed in way too much.
below is the .mat file for two stages.
stage1
1.034133551 0.05745793729 -0.01594270533 -3.468052433
-0.07200454824 1.071407219 0.2489433671 -41.37391172
0.04731769834 -0.2847380722 1.187150538 -30.92914789
0 0 0 1
stage2
3.256556402 0.1063202416 0.009448264855 -213.3949013
-0.1447458247 2.662809396 -0.1942981818 -135.905851
-0.03288855496 0.2660784902 2.648934108 -126.1225105
0 0 0 1
it seems to me that the brain has been tripled.
does anyone perhaps know why this is?
Best,
Wei
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