Hello,
I am having the same problem with the outlier script. The reference volume is chosen as a spike in 8 out of 9 runs that I tried. I thought this might somehow be due to not removing enough dummy volumes from the start of the run, so I tried playing around with that value. At 2, 4, or 10, the script always produces the same effect, namely removing the reference volume and usually the one after it (as well as other volumes). It's potentially consequential in my case because on the first 3 subjects I ran it on, it found between 5 and 15 outlier volumes per ~100 time points. Thanks in advance for your help with this.
Best,
Andrew
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