Daniel Jörgens's repositories
hodaie-teem
Fork of TEEM library for the Hodaie Lab
randomised_filtering
Code for randomised tractogram filtering using rSIFT
3D-CycleGan-Pytorch-MedImaging
Pytorch pipeline for 3D image domain translation using Cycle-Generative-Adversarial-networks, without paired examples.
baselines
OpenAI Baselines: high-quality implementations of reinforcement learning algorithms
BasicSR
Open Source Image and Video Restoration Toolbox for Super-resolution, Denoise, Deblurring, etc. Currently, it includes EDSR, RCAN, SRResNet, SRGAN, ESRGAN, EDVR, etc. Also support StyleGAN2, DFDNet.
bidscoin
BIDScoin converts your source-level neuroimaging data to BIDS
project_template
Project folder template for my projects.
bidsconv
Command-line tool to convert multi-subject raw dicoms to a full BIDS formatted dataset
codeare
Common data exchange and reconstruction engine for MRI
contrastive-unpaired-translation
Contrastive unpaired image-to-image translation, faster and lighter training than cyclegan (ECCV 2020, in PyTorch)
datalad
Keep code, data, containers under control with git and git-annex
deepsphere-pytorch
DeepSphere: a graph-based spherical CNN (PyTorch)
docker-pytorch
A Docker image for PyTorch
freesurfer_bids_app
recon-all from FreeSurfer
mne-bids
MNE-BIDS is a Python package that allows you to read and write BIDS-compatible datasets with the help of MNE-Python.
mne-bids-pipeline
Automatically process entire electrophysiological datasets using MNE-Python.
moab_taskman
Task manager for handling many long running machine learning experiments
neurocontainers
The containers can be used in combination with our transparent singularity or neurocommand tool, that wrap the executables inside a container to make them easily available for pipelines
neurodocker
Generate custom Docker and Singularity images, and minimize existing containers
nipype
Workflows and interfaces for neuroimaging packages
pytorch-ssim-3D
pytorch structural similarity (SSIM) loss for 3D images
scilpy
The Sherbrooke Connectivity Imaging Lab (SCIL) Python dMRI processing toolbox
tractoflow
TractoFlow: A robust, efficient and reproducible diffusion MRI pipeline leveraging Nextflow & Singularity