Dear Selma,
I recently wrote a wrapper for gPPI for our lab (which should be easily adaptable to your purposes), see the attachment. The included README explains the general workflow. I hope this helps you out! If you want to use this pipeline and want to thank me a bit, you could cite our recent paper that used exactly this code: https://academic.oup.com/cercor/article/31/7/3475/6156993
All the best,
Philipp
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Dr. Philipp Kuhnke
Post-Doc
Max Planck Institute for Human Cognitive and Brain Sciences,
Leipzig, Germany
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