Hi there!

So, I had a quick question if someone could answer it.

I'm trying to place my slice timing at some point in my pre-processing stream, and there are a few options that I thought I had to choose between:

1) Slice timing after reconstruction of the functional datastet, but before any further pre-procesing

2) Slice timing after removal of unnecessary volumes heading and trailing my functional dataset, but before concatenation of runs

3) Slice timing after removal of unnecessary volumes and after concatenation of runs.

I wasn't sure whether or not the slice timing algorithm in AFNI worked solely on a volume, or if there was an across volume effect of slice timing. I feel like there may be calculations that span volumes of data, in which case it seems like we should slice time before performing any further pre-processing, and definitely before any runs are concatenated, and I'm not sure whether or not we should slice time before the removal of unnecessary volumes from our dataset.

Does anyone have any insight into this? Or the algorithm, perhaps?

Thanks!

arul