Dear all,
I did a thing last week. It is not so much for dipy, but I guess some people
here are working also on functional data.I made a general Python package for
brain effective connectivity:https://pypi.org/project/effconnpy/
you can install it with "pip install effconnpy", or via git:
https://github.com/alecrimi/effconnpy
It assumes you have preprocessed the fMRI data with fMRIprep or somethingelse,
and you have extracted the time series according to an atlas.The result is a
brain effective connectivity matrix. The idea is to build something consistent
more people as possible can agree. I tested it on fMRI series, I didn't have
time to check fro EEG or something else.
The implemented methods includes: Bivariate Granger Causality, Transfer
Entropy, and Convergent Cross Mapping
Dynamic Bayesian Network, Structural Equation Modeling, DoWhy Causal Discovery,
and Dynamic Causal Modeling (SPM free :-) )
Multivariate Granger Causality as in Barnett & Seth 2014, Multivariate
Convergent Cross-Mapping (CCM) as in Nithya & Tangirala 2019, multivariate
transfer entropy as in Duan et al. 2022
Please send feedback, bugs, error and suggestions for improvements.
Best,Alex
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