This is the repository for the BioImage Suite Web Project

FSL-R Interface package

MATLAB toolbox to automatically detect, analyze and visualize spatiotemporal patterns in neural population activity, developed by Dr. Pulin Gong's group at University of Sydney

Perform automatic skull-stripping for neuroimage analysis

The QDECR package for vertex-wise analyses in R

Neuroimaging analysis in Python

Peak width of Skeletonized Mean Diffusivity (PSMD)

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

Exploring, organizing, and analysing neuroimages (MR focus)

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

Open Source EEG

Scripts for the Cho et al. (2024) manuscript

Pypelines Utilizing a Modular Inventory

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

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

Prisma preprocessing (AFNI)

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

A simple and intuitive wrapper for FSL tools.