Explore projects

This project will aim to address one of the big challenges in imaging-neuroscience: that of how a brain’s functional connectivity, represented by resting-state maps, can be predicted from structural connectivity information obtained from dw-MRI.

Analysis pipeline used in the ‘Capturing MultiORgan Effects of COVID-19’ (C-MORE) study.

FSL release management infrastructure

FIX - FMRIB's ICA-based Xnoiseifier Gholamreza Salimi-Khorshidi and Stephen Smith, FMRIB Analysis Group MATLAB compilation/wrapper Duncan Mortimer Copyright (C) 2012-2019 University of Oxford

FSL Tools for MR Spectroscopy - Fitting/Plotting/Simulations/etc.

Exploring machine learning methods, with special focus on the deep learning methods in order to attempt Neuroimage segmentation and analysis

The WIN open science tool to package up, and share data and analyses

CLI to download entire projects from openneuro.org

Pipeline for unbiased multimodal template construction from T1, T2 and DTI images.

Pipeline for brain imaging processing of UK Biobank.

Pipeline developed by Fidel Alfaro Almagro, Steve Smith and Mark Jenkinson.

Contributions by FMRIB Analysis Group, University of Oxford.

Computational modelling course taught as part of the WIN graduate programme.

Multi-MOdal Registration Framework

Triplanar U-Net ensemble network (TrUE-Net) model for WMH segmentation

Code for the generation, processing, and analysis of imaging confounds in UKB Biobank.

Python implementation of FSL's FIX tool for denoising

Matlab-based simulation tool for the DANTE-SPACE sequence, using the extended phase graph (EPG) formalism

FileTrees provide a way to define the content of a structured directory. This can be very handy when defining input/output files for a pipeline.

WMH and lesion segmentation tool