Thanks for this. It does appear that putting tenana into the current workflow of fMRIPrep has been put on the back burner.
I’m still a bit confused about what fMRIPrep is actually currently doing with ME data:
- the --t2s-coreg option says that if this option is not enabled, ‘standard EPI-T1 coregistration in performed using the middle echo.’ There was a post back in Aug. 2018 where @emdupre says that "
--t2s-coreg would not combine the multiple echos. It’s another way to coregister the functional and anatomical data by first generating a T2* map and then coregistering the anatomical to that single image rather than to each of the echos separately."
There are posts in 2019 that talk about removing this option all together based on issues raised about this option, so I’m hesitant to use it.
So, if we don’t use this option, (2) the boiler plate says it “optimally combines” the ME data, and gives a reference to the Posse 1999 paper. Is this what fMRIPrep is doing with the ME data? What is outlined by Posse et al.?