Explore projects

WMH and lesion segmentation tool

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

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

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

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

repo of files sorted by each meeting

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

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

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.

Tensor Image Registration Library - a modular general-purpose image registration framework for Python with prebaked scripts for histology-to-MRI registration.

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.

Code for inferring PRObabilistic FUnctional MOdes. See DOI: 10.1016/j.neuroimage.2015.01.013 and DOI: 10.1016/j.neuroimage.2020.117226.

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

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

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

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.