Explore projects

B0 Quality Control (bzqc) is a program that determines the best inputs for topup and eddy. It will also create most of the required input files for these tools.

Fork of https://github.com/ox-it/django-webauth with updates for modern Django

strokeseg is a python package + command line program to identify stroke in clinical brain images.

Grid submission wrapper

BRC-EM Transparent and Reproducible fMRI Analysis guide. Code and tutorials for analysis of a typical functional magnetic resonance imaging (fMRI) task data set collected as part of a study adopted by the University of Oxford Health Biomedical Research Centre (BRC) Experimental Medicine theme (BRC-EM).

Implementation of Bayesian EstimatioN of CHange

This repository contains processing code for the following publication:

Eichert N, Papp D, Mars RB & Watkins KE (2020) Mapping human laryngeal motor cortex during vocalization. Cerebral Cortex (accepted).

Talks and Jupyter notebook-based practicals for the 2018 WIN PyTreat

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.

A repo of folders containing Vagrant files that define useful Virtualbox recipes

The FSL installer (for conda-based FSL releases)

Python-based asymmetric fibre orientation distributions (aFODs) estimation library

FSL MELODIC results viewer. Specifically intended for use with training the FIX tool.

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.

Tools for low rank denoising of MRSI.

Utility to download and install FSL modules - patch files, atlases, standard templates, example data, etc etc.

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.

FSLeyes, the FSL image viewer.