all-contributors

✨ Recognize all contributors, not just the ones who push code ✨

awesome-pipeline

A curated list of awesome pipeline toolkits inspired by Awesome Sysadmin

bids-apps.github.io

bids-specification

Brain Imaging Data Structure (BIDS) Specification

circleci.py

Python Wrapper around the CircleCI API

cmpbidsappmanager

cmtklib-data

codecarbon

Track emissions from Compute and recommend ways to reduce their impact on the environment.

connectomemapper-bidsapp

This BIDS app implements full anatomical/diffusion/functional MRI processing pipeline using Connectome Mapper 3, from raw Diffusion / T1 / T2 / BOLD data to multi-resolution connection matrices. The Connectome Mapper 3 is part of the Connectome Mapping Toolkit. Copyright (C) 2009-2018, Ecole Polytechnique Fédérale de Lausanne (EPFL) and Hospital Center and University of Lausanne (UNIL-CHUV), Switzerland This software is distributed under the open-source license Modified BSD.

connectomemapper-ubuntu16.04

Docker image that provides a Ubuntu 16.04 (Xenial) with all CMP pre-requisite software installed

connectomemapper3

Connectome Mapper 3 is a BIDS App that implements full anatomical, diffusion, and resting/state functional MRI processing pipelines, from raw T1 / DWI / BOLD data to multi-resolution brain parcellation with corresponding connection matrices.

containers

Containers "distribution" for reproducible neuroimaging

datalad-ds-sample

dataqualitycontroltool

Data Profiler Tool for the Human Brain Project MIP Local Layer.

dicomserverci

dmriprep

dMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse dMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of the results.

docker-elk

docker-x11-bridge

Simple Xpra X11 bridge to enable GUI with any docker image

dockerhub-build-status-image

Status images for your dockerhub automated build (like those for travis)

eddymotioncorrection

Open-source eddy-current and head-motion correction for dMRI.

fmriprep

fMRIprep is a functional magnetic resonance image pre-processing pipeline that is designed to provide an easily accessible, state-of-the-art interface that is robust to differences in scan acquisition protocols and that requires minimal user input, while providing easily interpretable and comprehensive error and output reporting.

hackathon2020

Website for the 2020 OHBM Hackathon (Location: 3rd planet from the Sun)

itk

Insight Segmentation and Registration Toolkit -- Mirror

lesson-example

Example lesson using The Carpentries lesson template.

mialsuperresolutiontoolkit-1

The Medical Image Analysis Laboratory Super-Resolution ToolKit (MIALSRTK) consists of a set of C++ and Python processing and workflow tools necessary to perform motion-robust super-resolution fetal MRI reconstruction in the BIDS Apps framework.

mick-d.github.io

module-dataprocessing

A module for reproducible data processing

module-fair-data

multiscalebrainparcellator

Multi-Scale Brain Parcellator, part of the Connectome Mapping Toolkit (CMTK), is a BIDS App that implements a full anatomical MRI processing pipeline, from raw T1w data to structural brain parcellation at five different scales.

multiscalebrainparcellator-ubuntu16.04

Docker image that provides a Ubuntu Xenial system with all pre-requisite softwares installed for the multiscalebrainparcellator BIDS App.