Dear Lee,

Two quick additional comments about this case:

1) my guess is that perhaps you are seeing 91 slices (instead of your expected 72 slices) because you may have normalized your data prior to slice-timing-correction (normalization will resample your data by default to a canonical voxel-size and bounding-box). This is not the recommended approach, and slice-timing correction is typically recommended either as the first step of preprocessing or as the second step (right after realignment). See for example the default preprocessing pipeline in CONN for reference. If you are already using the default preprocessing pipeline, this probably means that you are trying to re-apply the preprocessing pipeline to an already-preprocessed dataset (already in MNI-space), so simply go back to your original data in the CONN gui 'functional' and 'structural' tabs before re-starting your preprocessing pipeline and that should fix this issue

2) when using multiband sequences (e.g. MB=3 in your case) you need to specify slice-times instead of slice-order for slice-timing-correction (i.e. enter a vector with 72 numbers specifying the acquisition time in milliseconds for each slice). For example, in your case this may look something like the following sequence: 0.0 83.3 166.7 250.0 333.3 416.7 500.0 583.3 666.7 750.0 833.3 916.7 1000.0 1083.3 1166.7 1250.0 1333.3 1416.7 1500.0 1583.3 1666.7 1750.0 1833.3 1916.7 0.0 83.3 166.7 250.0 333.3 416.7 500.0 583.3 666.7 750.0 833.3 916.7 1000.0 1083.3 1166.7 1250.0 1333.3 1416.7 1500.0 1583.3 1666.7 1750.0 1833.3 1916.7 0.0 83.3 166.7 250.0 333.3 416.7 500.0 583.3 666.7 750.0 833.3 916.7 1000.0 1083.3 1166.7 1250.0 1333.3 1416.7 1500.0 1583.3 1666.7 1750.0 1833.3 1916.7  NOTE: this is just an example, it assumes ascending order of slices with MB=3, but check with your physicist to figure out the actual order of your multiband sequence (e.g. it may be interleaved ascending instead of simply ascending). I believe from your description that you are already doing this correctly but I just wanted to double-check 

Hope this helps
Alfonso
 
Originally posted by jeonho lee: