A flexible ML framework built to simplify medical image reconstruction and analysis experimentation.

Overview

meddlr

Getting Started

Meddlr is a config-driven ML framework built to simplify medical image reconstruction and analysis problems.

Installation

To avoid cuda-related issues, downloading torch, torchvision, and cupy (optional) must be done prior to downloading other requirements.

# Create and activate the environment.
conda create -n meddlr_env python=3.7
conda activate meddlr_env

# Install cuda-dependant libraries. Change cuda version as needed.
# Below we show examples for cuda-10.1
conda install pytorch torchvision cudatoolkit=10.1 -c pytorch
pip install cupy-cuda101

# Install as package in virtual environment (recommended):
git clone https://github.com/ad12/meddlr.git
cd dl-ss-recon && python -m pip install -e '.[dev]'

# For all contributors, install development packages.
make dev

Contributing

See CONTRIBUTING.md for more information.

Acknowledgements

Meddlr's design for rapid experimentation and benchmarking is inspired by detectron2.

About

If you use Meddlr for your work, please consider citing the following work:

@article{desai2021noise2recon,
  title={Noise2Recon: A Semi-Supervised Framework for Joint MRI Reconstruction and Denoising},
  author={Desai, Arjun D and Ozturkler, Batu M and Sandino, Christopher M and Vasanawala, Shreyas and Hargreaves, Brian A and Re, Christopher M and Pauly, John M and Chaudhari, Akshay S},
  journal={arXiv preprint arXiv:2110.00075},
  year={2021}
}
Owner
Arjun Desai
Arjun Desai
Locally Differentially Private Distributed Deep Learning via Knowledge Distillation (LDP-DL)

Locally Differentially Private Distributed Deep Learning via Knowledge Distillation (LDP-DL) A preprint version of our paper: Link here This is a samp

Di Zhuang 3 Jan 08, 2023
Photographic Image Synthesis with Cascaded Refinement Networks - Pytorch Implementation

Photographic Image Synthesis with Cascaded Refinement Networks-Pytorch (https://arxiv.org/abs/1707.09405) This is a Pytorch implementation of cascaded

Soumya Tripathy 63 Mar 27, 2022
A python-image-classification web application project, written in Python and served through the Flask Microframework

A python-image-classification web application project, written in Python and served through the Flask Microframework. This Project implements the VGG16 covolutional neural network, through Keras and

Gerald Maduabuchi 19 Dec 12, 2022
Programming with Neural Surrogates of Programs

Programming with Neural Surrogates of Programs

0 Dec 12, 2021
Go from graph data to a secure and interactive visual graph app in 15 minutes. Batteries-included self-hosting of graph data apps with Streamlit, Graphistry, RAPIDS, and more!

✔️ Linux ✔️ OS X ❌ Windows (#39) Welcome to graph-app-kit Turn your graph data into a secure and interactive visual graph app in 15 minutes! Why This

Graphistry 107 Jan 02, 2023
Evaluation suite for large-scale language models.

This repo contains code for running the evaluations and reproducing the results from the Jurassic-1 Technical Paper (see blog post), with current support for running the tasks through both the AI21 S

71 Dec 17, 2022
'Aligned mixture of latent dynamical systems' (amLDS) for stimulus decoding probabilistic manifold alignment across animals. P. Herrero-Vidal et al. NeurIPS 2021 code.

Across-animal odor decoding by probabilistic manifold alignment (NeurIPS 2021) This repository is the official implementation of aligned mixture of la

Pedro Herrero-Vidal 3 Jul 12, 2022
TrackTech: Real-time tracking of subjects and objects on multiple cameras

TrackTech: Real-time tracking of subjects and objects on multiple cameras This project is part of the 2021 spring bachelor final project of the Bachel

5 Jun 17, 2022
Face Depixelizer based on "PULSE: Self-Supervised Photo Upsampling via Latent Space Exploration of Generative Models" repository.

NOTE We have noticed a lot of concern that PULSE will be used to identify individuals whose faces have been blurred out. We want to emphasize that thi

Denis Malimonov 2k Dec 29, 2022
Efficient 6-DoF Grasp Generation in Cluttered Scenes

Contact-GraspNet Contact-GraspNet: Efficient 6-DoF Grasp Generation in Cluttered Scenes Martin Sundermeyer, Arsalan Mousavian, Rudolph Triebel, Dieter

NVIDIA Research Projects 148 Dec 28, 2022
TrackFormer: Multi-Object Tracking with Transformers

TrackFormer: Multi-Object Tracking with Transformers This repository provides the official implementation of the TrackFormer: Multi-Object Tracking wi

Tim Meinhardt 321 Dec 29, 2022
[AAAI 2022] Negative Sample Matters: A Renaissance of Metric Learning for Temporal Grounding

[AAAI 2022] Negative Sample Matters: A Renaissance of Metric Learning for Temporal Grounding Official Pytorch implementation of Negative Sample Matter

Multimedia Computing Group, Nanjing University 69 Dec 26, 2022
CUP-DNN is a deep neural network model used to predict tissues of origin for cancers of unknown of primary.

CUP-DNN CUP-DNN is a deep neural network model used to predict tissues of origin for cancers of unknown of primary. The model was trained on the expre

1 Oct 27, 2021
Used to record WKU's utility bills on a regular basis.

WKU水电费小助手 一个用于定期记录WKU水电费的脚本 Looking for English Readme? 背景 由于WKU校园内的水电账单系统时常存在扣费延迟的现象,而补扣的费用缺乏令人信服的证明。不少学生为费用摸不着头脑,但也没有申诉的依据。为了更好地掌握水电费使用情况,留下一手证据,我开源

2 Jul 21, 2022
Jupyter notebooks for the code samples of the book "Deep Learning with Python"

Jupyter notebooks for the code samples of the book "Deep Learning with Python"

François Chollet 16.2k Dec 30, 2022
Monocular Depth Estimation - Weighted-average prediction from multiple pre-trained depth estimation models

merged_depth runs (1) AdaBins, (2) DiverseDepth, (3) MiDaS, (4) SGDepth, and (5) Monodepth2, and calculates a weighted-average per-pixel absolute dept

Pranav 39 Nov 21, 2022
WeakVRD-Captioning - Implementation of paper Improving Image Captioning with Better Use of Caption

WeakVRD-Captioning - Implementation of paper Improving Image Captioning with Better Use of Caption

30 Oct 28, 2022
RealTime Emotion Recognizer for Machine Learning Study Jam's demo

Emotion recognizer Table of contents Clone project Dataset Install dependencies Main program Demo 1. Clone project git clone https://github.com/GDSC20

Google Developer Student Club - UIT 1 Oct 05, 2021
Deep and online learning with spiking neural networks in Python

Introduction The brain is the perfect place to look for inspiration to develop more efficient neural networks. One of the main differences with modern

Jason Eshraghian 447 Jan 03, 2023
This package contains deep learning models and related scripts for RoseTTAFold

RoseTTAFold This package contains deep learning models and related scripts to run RoseTTAFold This repository is the official implementation of RoseTT

1.6k Jan 03, 2023