Hi everyone!

I am seeking some help and clarification since I am kind of confused right now. I had some significant results in a seed-voxel analysis, and I found a specific pattern of activation in the ICC analysis. After a meeting, I was told that in my case, the effect of rest was not necessary, so I did the denoising without this confound. I found that the significant effect was gone, which I thought was a little weird given what I understood about the effect of rest. I decided to try denoising with the effect of rest again to check, and again, there were no significant results. Then I decided to check the ICC analysis and found that the pattern of activation was completely different, which doesn’t make sense to me.

I have to emphasize that I did the whole preprocessing and denoising twice because I had a problem with a backup. I had the same results both times, so I am very confident in these results with that pipeline.

While I am running the whole pipeline again, which is going to take some time...

I checked the files in the setup because I saw in the forum that it might be caused by double preprocessing, but the files are good, not "swauswau.." for example.

The other thing I wanted to ask is regarding the realignment and the scrubbing. I decided to try a new project with the preprocessed structural and functional files, but when the preprocessing step is done, I only have the confounds (White matter, CSF, Effect of rest). I don't have the effects of realignment and scrubbing. Do I need to upload another file with that separately?

Thanks in advance for your help!