try mri_convert -help. I think it's -ii -ij etc for input i direction. But the values will of course depend on how the data was collected. If you have the dicoms around convert from those instead and mri_convert will read the direction cosines automatically.
Bruce
On Wed, 13 Apr 2005, Wan Park wrote:
Could you please teach me how to specify the direction cosines in the mri_convert?
thank you very much,
wan
On Apr 12, 2005, at 4:40 PM, Bruce Fischl wrote:
you need to specify the correct direction cosines in mri_convert. The problem is that telling left from right posthoc is pretty much impossible unless you've used something like vitamin E tablets in the scan. This is why we don't use analyze, unless it comes with an spm-style .mat file (which does specify the direction cosines)
Bruce
On Tue, 12 Apr 2005, Wan Park wrote:
Hello, after parcellating some brains, I have noticed that the program "get confused" and label the occipital as frontal and viceversa.
I started with img/hdr images. I suspect that this occurs because of a "wrong" direction of the original image before doing mri_convert. Is it true?
How can I solve this?
Thanks,
Wan
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