open-discussion
open-discussion > RE: Visual check of the DTI data
Mar 23, 2020 08:03 PM | Martin Styner
RE: Visual check of the DTI data
Originally posted by ameliaqian:
If you do a visual assessment, you need to do more than 1 slice per gradient. Best look at the orthogonal directions, i.e. if your data is axial, look at the sagittal and coronal slices, as you can see across-slice differences best in those views.
You can use the visual QC mode in DTIPrep (though it is quite clunky) to remove DWI gradients with bad slices.
With respect to failing a whole scan, we usually use a 30% threshold as compared to the full number of gradients (i.e. not based on the number of gradients in the QC output of DTIPrep, but the original number of gradients).
Martin
I have ran the DTIPrep automated pipeline and
going to have visual check on QCed data. I noticed that the
exclusion in DTIprep is gradient-based. I wonder whether I need to
check every slice in one gradient to make sure there is no
artifacts, or one slice in each gradient is enough. Also, I wonder
if the same artifact occurs in multiple gradient (~10-20%), should
I code this whole scan as failed?
If you do a visual assessment, you need to do more than 1 slice per gradient. Best look at the orthogonal directions, i.e. if your data is axial, look at the sagittal and coronal slices, as you can see across-slice differences best in those views.
You can use the visual QC mode in DTIPrep (though it is quite clunky) to remove DWI gradients with bad slices.
With respect to failing a whole scan, we usually use a 30% threshold as compared to the full number of gradients (i.e. not based on the number of gradients in the QC output of DTIPrep, but the original number of gradients).
Martin
Threaded View
| Title | Author | Date |
|---|---|---|
| ameliaqian | Feb 28, 2020 | |
| Martin Styner | Mar 23, 2020 | |
| ameliaqian | Mar 23, 2020 | |
| Martin Styner | Mar 23, 2020 | |
| ameliaqian | Mar 24, 2020 | |
| ameliaqian | Mar 23, 2020 | |
| Martin Styner | Mar 23, 2020 | |
| ameliaqian | Mar 29, 2020 | |