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PennLINC / xcpEngine

Official public repository for the XCP Engine. This tool is deprecated in favor of XCP-D and ASLPrep.
MIT License
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Residualized gifti outputs in the other spaces such as fsaverage5 #419

Closed YukiSakai1209 closed 3 years ago

YukiSakai1209 commented 3 years ago

@a3sha2 When I see regress.mod ( https://github.com/PennBBL/xcpEngine/blob/3fca3eb6eada4440618866fd25e0c5510012b1f8/modules/regress/regress.mod ), it seems that we can get the residualized gifti outputs only for the gifti in fsnative space. When we want to get the residualized gifti outputs in the other spaces such as fsaverage5, how can we do it? Since fmriprep has many other kinds of output spaces, it will be much more useful if we can get them.

It's a very similar problem, but for cifti output, if there are different densities of output (i.e., 91k and 170k), I think one of them will be overwritten. How can I get both outputs?

a3sha2 commented 3 years ago

@YukiSakai1209
I will look at it quickly and get back to you

YukiSakai1209 commented 3 years ago

@a3sha2 Thank you for your quick response.

a3sha2 commented 3 years ago

pls pull for new docker singularity image pls pennbbl/xcpengine:latest let me know if works for you or not pls

YukiSakai1209 commented 3 years ago

@a3sha2 Thank you very much. I'll pull docker image pennbbl/xcpengine:latest and try it.

YukiSakai1209 commented 3 years ago

@a3sha2 By the way, as I mentioned in # 411 ( https://github.com/PennBBL/xcpEngine/issues/411 ), surface processing will not work when we add ‘despike’. How can we get the residualized cifti/gifti outputs when we use fc-36p_despike.dsn?

YukiSakai1209 commented 3 years ago

@a3sha2 Although I have not finished the whole analysis steps, I confirmed the residualized cifti/gifti outputs (e.g., cifti: den-91k; gifti: fsaverage5 and fsnative) using pennbbl/xcpengine:latest. Although I saw one carpet plot (.svg) for two gifti (fsaverage5 and fsnative), this may be the behavior you are expecting if you are outputting at the downsampled resolution. Is my understanding correct? Thank you.

a3sha2 commented 3 years ago

yes, thank you @YukiSakai1209