| T O P I C R E V I E W |
| Bethany |
Posted - Mar 24 2006 : 6:01:53 PM
I'm not sure if this is the correct subforum for this, but here goes:
What's the difference between the series003 and series300 anatomical images off the 3T scanner? Which ones should I be using for pre-processing, or does it matter?
Bethany |
| 4 L A T E S T R E P L I E S (Newest First) |
| josh.bizzell |
Posted - Mar 29 2006 : 09:45:59 AM
Scott,
I'm not sure when this change was implemented, but we have data as early as December that appear to have the SCIC post-processing.
My guess is that, to get this data, you'll need to reload your data on the scanner machine and get one of the tech's to run ClarView/SCIC (it should be backed up). It doesn't take much time, and they'll need to manually transfer it since the transfer daemon doesn't detect it.
-Josh |
| scott.huettel |
Posted - Mar 28 2006 : 5:50:23 PM
Note that the use of the series003 images can cause pretty severe distortions in BPUtil normalization - the brain can be quite compressed along the y-dimension due to the intensity gradients across the original image.
When was the change to the SCIC procedure made and how is Clariview run? I ask because we have at least one subject (e.g., 41999 collected on 3/1) that only have the series003 data and not the series300. These data do not normalize correctly because of the intensity gradients. Please clarify as to how this can be corrected.
Scott
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| jim.voyvodic |
Posted - Mar 24 2006 : 10:39:33 PM
Josh is right. To elaborate a bit, there are a number of postprocessing procedures that can be done on the 3T scanner console, and each one generates a new series in the hundreds range, to distinguish it from the original scan data. Susan routinely runs the "Clariview" post-processing step on high resolution anatomical scans, which as Josh mentioned performs an intensity enhancement and results in a series number 100 times the original (3->300). This step (called SCIC processing) can be performed during acquisition but we were having some problems combining SCIC with the ASSET option used for 8-channel parallel imaging so now we routinely acquire with SCIC off and then run Clariview afterwards. You get 2 copies of your anatomical scan but the second should be much prettier. Look at both series and then if you want you can delete the first to save space (just be sure it's the right one you're deleting -- but it's also on backup tape if you need to get it back in an emergency).
Jim |
| josh.bizzell |
Posted - Mar 24 2006 : 8:26:22 PM
Bethany
If your study is like studies I've worked with, the difference is that series300 has had what's called "SCIC" post-processing done on it. Basically, it makes the intensity of the image uniform throughout the brain (with the 8 channel coil, the top and bottom of the brain might be dimmer than the rest).
I'd suggest using series300, if this one has "SCIC" and series003 does not.
-Josh |
