Hi Everyone,
I have a quick question in regards to BBR and registration. I noticed that the BBR function requires both the brain extracted and non brain extracted images and that it will recognize the brain extracted image by the _brain extension. In my analysis, I am also using the fslreorient2std command and this is done after brain extraction so my structurals have a _std extension.
First, should I be inputting the brain extracted or non brain extracted image in as the main structural image? I have been inputting the brain extracted image and haven't had any registration issues.
Second, if my images have the format "input_brain_std" will the program still recognize the _brain part as indicating that it is the brain extracted image or does it have to be the last part of the filename? I have been inputting them in the format "input_brain_std" and not had any visible issues.
Thanks,
Sarah
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