SPM realignment parameters

Question

SPM realignment parameters

hldot opened this issue 7 years ago · 2 comments

Hi,

Thanks so much for your previous quick response. As advised, I brought my pre-processed functional .nii into MNI space using FLIRT. However, I am now running into an error when the script attempts to utilize the realignment parameters from the realignment I did in SPM- I think this may be due to the different format of the parameter file resulting from SPM vs FSL, and wondered if there was a way to re-format the file so that the script can read it (or if you think this error i

s related to another issue) ?

Thanks,
Hailey

Answer 1 · 2017-10-10T02:25:31.000Z

Hi Hailey,

how did you call ICA-AROMA, as in did you see the section in the manual that instructs on how to run AROMA in case your data is in FSL MNI152 space?

Answer 2 · 2017-10-10T10:24:27.000Z

Hi Maarten, I tried two ways- first with the original .nii and an -affmat that was generated from FLIRT when I did a transformation for my data into MNI152. This generated the error with the parameters file- in your example there the .par file, but using SPM it looks like rp_(subject).txt. I also tried the example you gave above (using the transformed .nii), but got this other error (screenshot attached), which indicated to me that the previous way I tried to run it actually got further along in the script. Thanks for your help, Hailey

…

On Mon, Oct 9, 2017 at 10:25 PM, Maarten Mennes ***@***.***> wrote: Hi Hailey, how did you call ICA-AROMA, as in did you see the section in the manual that instructs on how to run AROMA in case your data is in FSL MNI152 space? [image: image] <https://user-images.githubusercontent.com/1139180/31366732-46cc41aa-ad38-11e7-9b56-61a8881d9e91.png> — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub <#17 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AfA5Ys3j3VnyB9UnJAVXnIRozn7saU3pks5sqtWbgaJpZM4PyaqJ> .

-- *Hailey L. Dotterer, M.S.* *Department of Psychology* *University of Michigan* *530 Church St.* *Rm 2269* *Ann Arbor, MI 48109* *hdotty@umich.edu <hdotty@umich.edu>*