This is the repository for the BioImage Suite Web Project

FSL-R Interface package

Exploring, organizing, and analysing neuroimages (MR focus)

Neuroimaging analysis in Python

Peak width of Skeletonized Mean Diffusivity (PSMD)

Open Source EEG

The QDECR package for vertex-wise analyses in R

Preprocessing toolbox for rat rs-fMRI data

Threshold-free cluster enhancement toolbox for Matlab

Matlab toolbox to deconvolve BOLD-fMRI data. It produces the underlying spatiotemporal neural and hemodynamic activity

Implementation of algorithm in 'Yikang Liu et al. (2020) Automatic Brain Extraction for Rodent MRI Images. Neuroinformatics. doi: 10.1007/s12021-020-09453-z''

Scripts for the Cho et al. (2024) manuscript

Software for simulating MEG and EEG event-related responses. functional connectivity, and phase-amplitude coupling

A modern web interface for VoxLogicA, the Voxel-based Logical Analyser.

3D motion correction and motion analysis for microscopy videos

Analysis code for connecting time-series properties of BOLD dynamics to connectivity properties using human fMRI and DWI data from HCP

Python implementation of various Brainstorm functions, often written for GPU or jit speed-up.

Pypelines Utilizing a Modular Inventory

Scripts, atlases etc. used for MRI & PET research in the AMYPAD consortium

Prisma preprocessing (AFNI)

A simple and intuitive wrapper for FSL tools.

Pre-clinical DSC-MRI perfusion map generator written in Python

Analysis of the EEG LEMON and MEG CamCAN datasets

EEG-based machine learning classification of Alzheimer's Disease and Frontotemporal Dementia using frequency-domain analysis.

Atlas methods and classes for neuroimaging

Analysis of the NTAD dataset

Auxiliary functions for calculating Simultaneous Confidence Corridors (SCCs) on PET neuroimaging data.

A set of tools for medical imaging processing and analysis that I have been crafting over the years.

This is a repository of MATLAB codes accompanying the paper "Non-linear functional co-activations: directed, dynamic, and delayed"

The Landing page for the NiChart project