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Replacing MCFLIRT with 3dVolReg in FMRIPREP #2

chrisgorgo opened this issue Sep 14, 2018 · 2 comments

Replacing MCFLIRT with 3dVolReg in FMRIPREP #2

chrisgorgo opened this issue Sep 14, 2018 · 2 comments


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@chrisgorgo chrisgorgo commented Sep 14, 2018

Project Title

Replacing MCFLIRT with 3dVolReg in FMRIPREP


Name Position Institute
Chris Gorgolewski Co-Director Stanford Center for Reproducible Neuroscience

Many thanks to Chris Markiewicz and Bob Cox for comments and feedback.

Project Summary

Understand how AFNI is saving affine matrices and using this knowledge to replace MCFLIRT with 3dVolReg in FMRIPREP

Project Significance

Understanding affine matrix file format used in AFNI will be useful in context of the upcoming effort to design a universal format for storing transformations. In context of FMRIPREP being able to choose between MCFLIRT and 3dVolReg gives us more options.

Progress Report

Functions to convert between AFNI and ANTs affine transformation files
In person interactions are still the most effective way to get all the necessary information.

Project URLs

nipreps/fmriprep#1283 (review)

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@yarikoptic yarikoptic commented Sep 15, 2018

You could add to significance the license aspect for choosing between FSL ( non-free -- couldn't be used in commercial settings without paying etc) and AFNI

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@ruyuanzhang ruyuanzhang commented Apr 17, 2019

I am new to fMRIprep and still looking for functions that can convert AFNI affine matrics to FSL matrics. But after I read this conversation I am still lost.. Can someone point me to the function in fmriprep?? Thanks

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