FSL users and experts,
Hello, I'm a user of BIANCA,I have some questions about the userguide.
Q1.about images preparation:
"Choose your base image. This will be your reference space for your input and output images. Register all the other modalities to your base image for each subject."
Can I respectively choose the T1 image as a reference space for each single subject, then register the FLAIR to T1 with FLIRT in fsl?
"Perform brain extraction on (at least) one modality to be able to derive a brain mask."
Does the "brain extraction" refer to remove the skull?
Q2.about Master file preparation
How to create the master file? by manually editing in a new text file or inputting the command lines in terminal?
Q3.“--singlefile=<masterfile> name of the master file (e.g. masterfile.txt)”
What should I type in the option “Masterfile”? the file name(e.g. masterfile.txt) or the entire path to the text file?
I really appreciate for your kind help.
Best wishes.
Jingwen.
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