SSwarper base volumes

AFNI Message Board
1

Hi !

I am using SSwarper for anatomical preprocessing. It looks like the links provided in the SSwarper base volumes webpage for the three templates are broken.

SSwarper base volumes webpage: https://afni.nimh.nih.gov/pub/dist/doc/htmldoc/template_atlas/sswarper_base.html

MNI152_2009_template_SSW (link not working) : https://afni.nimh.nih.gov/pub/dist/atlases/current/MNI152_2009_template_SSW.nii.gz

TT_N27_SSW (link not working) : https://afni.nimh.nih.gov/pub/dist/atlases/current/TT_N27_SSW.nii.gz

I was also wondering if someone can tell me which paper should I cite when I use SSwarper-MNI152_2009_template_SSW ?

Thanks in advance !
-Sahithyan

2

Hi, Sahithyan-

Ah, thanks for pointing that out. I have just updated those links in the documentation here:
https://afni.nimh.nih.gov/pub/dist/doc/htmldoc/template_atlas/sswarper_base.html#reference-templates-for-sswarper
Please let us know if that doesn’t work.

For citing, we usually just cite the workhorse nonlinear warping program at the heart of @SSwarper, which is 3dQwarp, whose citation is:
Cox RW, Glen DR (2013). Nonlinear warping in AFNI. Presented at the 19th Annual Meeting of the Organization for Human Brain Mapping.
https://afni.nimh.nih.gov/pub/dist/HBM2013/Cox_Poster_HBM2013.pdf
E.g., “@SSwarper was used for both skullstripping the anatomical and estimating its nonlinear alignment to template space (via AFNI’s 3dQwarp (Cox and Glen, 2013)).”

–pt

3

Thank you for updating the links in the documentation. The links work now.

And thanks for the reference on nonlinear warping in AFNI.