Dear Chris,

Sorry for asking questions again, and thanks for your time.

In the attachment, I've put all 192 slices from an AD subject. Here is a couple of silly questions that I wanna make sure:

1: .imwirte function returns all black images with .png, does this matter? (the matrix is fine, I could use .imread to get back to original image.)
2: I wanna remove noisy slices and non-tissue slices, and is there any standard for removing those slices or do I have to remove?
3: When I open a new NifTI file on MRIcron, it returns a different initial Y value for the initial coronal slice. For example, Y=47 for subject A, and Y=59 for subject B. Does this different Y value refer that they have different brain size, but the corresponding initial slices (Y=47 & Y=59) come from the same or similar coronal plane position? Or how can I check my two slices have a similar plane position without (or before) doing normalization?

Thank you.

Jumatay