Benchmarking 256 resting-state fMRI connectivity pipelines for Eyes Open vs Eyes Closed classification. Compares denoising strategies, atlases, and connectivity metrics across cross-site validation scenarios.

TFNBS toolbox is a python package for computing Statistical inferences in brain graphs using threshold-free network-based approach

TMFC toolbox - a new SPM toolbox for whole-brain task-modulated functional connectivity (TMFC) analysis with user-friendly graphical interface.

TMFC denoise - a new SPM toolbox for task fMRI denoising with user-friendly graphical interface.

PIE Toolbox is a Python package for processing, analyzing, and classifying neuroimaging voxel data using SSM-PCA and SVM.

Event related neuronal dynamic simulator

BOLD signal deconvolution based on ridge regression. Can be used to calculate psycho-physiological interaction (PPI) at the neuronal level. Python and MATLAB functions recover neuronal time series, similar to the Parametric Empirical Bayes (PEB) approach implemented in SPM12 (spm_peb_ppi.m).

This package enables users to generate biophysically realistic simulations of task-modulated fMRI time series with predefined task designs and customized synaptic weight matrices for each condition (task or rest).

Repository for Masharipov, R. et al. Comparison of whole-brain task-modulated functional connectivity methods for fMRI task connectomics. Commun Biol 7, 1402 (2024). https://doi.org/10.1038/s42003-024-07088-3

Bayesian inference toolbox for SPM12