Dear Daniel,
>
> The mask discussed in the user guide called my_hifi_b0_brain_mask that is previously produced in topup, what can I use in place of this? Can I use bet on the b=0 images for each of my subjects to make the binary masks?
yes.
>
> For acqparams.txt, do I need this data considering I am not using results from topup? And if so does the information provided change?
Yes again. The info doesn’t change, but as I have explained in previous posts you don’t need to know the readout time in this case. Just use 0.05. Look at the eddy/topup help pages to compare the images there with the images you have to figure out what the three first values should be.
Jesper
>
> Thank you,
> Daniel
>
> ########################################################################
>
> To unsubscribe from the FSL list, click the following link:
> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
########################################################################
To unsubscribe from the FSL list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
|