Explore projects

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.

Python implementation of FSL's FIX tool for denoising

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.

Multimodal templates constructed by jointly optimising similarity across multiple scalar- and tensor-based modalities using MMORF for nonlinear registrations.

The FMRIB UKBioBank Normalisation, Parsing And Cleaning Kit

FSL release management infrastructure

Multi-MOdal Registration Framework

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

Guidance for booking of WIN Wednesdays and WIPs

Served at https://open.win.ox.ac.uk/pages/cassag/WIN-Wednesdays-and-WIPs