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

Peak width of Skeletonized Mean Diffusivity (PSMD)

Preprocessing toolbox for rat rs-fMRI data

Neuroimaging analysis in Python

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

Threshold-free cluster enhancement toolbox for Matlab

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

Pypelines Utilizing a Modular Inventory

Scripts for the Cho et al. (2024) manuscript

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

Exploring, organizing, and analysing neuroimages (MR focus)

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

A simple and intuitive wrapper for FSL tools.

Prisma preprocessing (AFNI)

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

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