help > ART file selection
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Feb 17, 2017  12:02 PM | equivocal
ART file selection
Hi, a quick question – in selecting files for analysis I've been taking the raw images prior to realignment, normalization etc.  I just wanted to confirm this is correct?  Thanks!
Feb 25, 2017  03:02 PM | Sreekrishna Ramakrishnapillai
RE: ART file selection
I believe you have to pre-processors the image prior to using ART. It asks for the rp_functional.txt that contains the motion parameters to display out liers
Feb 26, 2017  03:02 PM | equivocal
RE: ART file selection
When you run art within matlab, in the GUI do you select the raw functional images, or do you select the realigned functional images, and why

Originally posted by Sreekrishna Ramakrishnapillai:
I believe you have to pre-processors the image prior to using ART. It asks for the rp_functional.txt that contains the motion parameters to display out liers
Feb 27, 2017  10:02 AM | alexandre boutet
RE: ART file selection
I was also wondering the same thing.

As the input file, do we use the realigned functionnal images? The warped images? Or the smoothed images?
Feb 28, 2017  05:02 PM | Sreekrishna Ramakrishnapillai
RE: ART file selection
I normally use the realigned, smoothed and warped images from SPM. As far I understand the toolbox just displays the outliers based on the threshold  parameters that you set. The motion parameters need to be estimated in prior by SPM and the output (rp_functional.txt) needs to be given as input. Correct me if I am wrong.

Update: i just found something from old posts:

Sep 1, 2014 05:09 AM
Alfonso Nieto-Castanon
McGovern Institute for Brain Research. MIT
RE: What do I do with the output?
Hi Ivan,
Typically you would input the images after spatial realignment and coregistration/normalization (but before spatial smoothing)
Best
Alfonso
Mar 1, 2017  09:03 AM | equivocal
RE: ART file selection
Ha.  I wonder what the rationale is for this choice.

I would think the goal is to estimate the artifact in the data before pre-processing, and so all labs I've been in have only ever input the raw images before any preprocessing.