Unofficial implementation of Point-Unet: A Context-Aware Point-Based Neural Network for Volumetric Segmentation

Overview

Point-Unet

This is an unofficial implementation of the MICCAI 2021 paper Point-Unet: A Context-Aware Point-Based Neural Network for Volumetric Segmentation

The authors claim that they will provide their code in late November, so this repo will then be depreciated. I am currently also working on a similar field of this paper and want to compare our method with Point-Unet, so I implemented the method by myself to analyze the result early.

Note that the method has been modified to make it runnable on a 11G memory graphic card, and the experiment is only conducted for BRATS WT segmentation. The experimental results are only for reference, and if you want to test the result for your own paper please wait for the official version of the code.

How to use this repo?

Keep in mind that Point-Unet is a two-stage coarse-to-fine framework and cannot be trainned end-to-end. So, to run the code, you have to firstly train a Saliency Attention Network by running:

    CUDA_VISIBLE_DEVICES=0 python3 -u train_saliencyAttentionNet.py

This model uses the original BRATS dataset for training. Remember to specify the path to the dataset.

Secondly, we need to sample the 3D images into point clouds with the help of Saliency Attention Network. To realize this goal, run:

    CUDA_VISIBLE_DEVICES=0 python3 -u generate_pointSetDataset.py

You can adjust the density of sampling by changing the density parameter in this file. This python file will generate a new dataset for Point-Unet.

At last, we can train Point-Unet with:

    CUDA_VISIBLE_DEVICES=0 python3 -u train_pointunet.py

A simple testing function is integrated in this file and can be used as an insight to the model performance.

Warnings

  • This project is still under construction and may contain some errors.
  • Point-Unet is not implemented currently and this repo currently only uses RandLA
  • This implementation is not exactly the same as what is described in the paper.
Owner
Namt0d
Get yourself a cup of tea. ˊ_>ˋ旦
Namt0d
[CVPR 2021] Monocular depth estimation using wavelets for efficiency

Single Image Depth Prediction with Wavelet Decomposition Michaël Ramamonjisoa, Michael Firman, Jamie Watson, Vincent Lepetit and Daniyar Turmukhambeto

Niantic Labs 205 Jan 02, 2023
Bald-to-Hairy Translation Using CycleGAN

GANiry: Bald-to-Hairy Translation Using CycleGAN Official PyTorch implementation of GANiry. GANiry: Bald-to-Hairy Translation Using CycleGAN, Fidan Sa

Fidan Samet 10 Oct 27, 2022
The repo contains the code to train and evaluate a system which extracts relations and explanations from dialogue.

The repo contains the code to train and evaluate a system which extracts relations and explanations from dialogue. How do I cite D-REX? For now, cite

Alon Albalak 6 Mar 31, 2022
A lossless neural compression framework built on top of JAX.

Kompressor Branch CI Coverage main (active) main development A neural compression framework built on top of JAX. Install setup.py assumes a compatible

Rosalind Franklin Institute 2 Mar 14, 2022
Fastquant - Backtest and optimize your trading strategies with only 3 lines of code!

fastquant 🤓 Bringing backtesting to the mainstream fastquant allows you to easily backtest investment strategies with as few as 3 lines of python cod

Lorenzo Ampil 1k Dec 29, 2022
Code accompanying the NeurIPS 2021 paper "Generating High-Quality Explanations for Navigation in Partially-Revealed Environments"

Generating High-Quality Explanations for Navigation in Partially-Revealed Environments This work presents an approach to explainable navigation under

RAIL Group @ George Mason University 1 Oct 28, 2022
OBBDetection: an oriented object detection toolbox modified from MMdetection

OBBDetection note: If you have questions or good suggestions, feel free to propose issues and contact me. introduction OBBDetection is an oriented obj

MIXIAOXIN_HO 3 Nov 11, 2022
Pytorch domain adaptation package

DomainAdaptation This package is created to tackle the problem of domain shifts when dealing with two domains of different feature distributions. In d

Institute of Computational Perception 7 Oct 22, 2022
Open source hardware and software platform to build a small scale self driving car.

Donkeycar is minimalist and modular self driving library for Python. It is developed for hobbyists and students with a focus on allowing fast experimentation and easy community contributions.

Autorope 2.4k Jan 04, 2023
YOLOV4运行在嵌入式设备上

在嵌入式设备上实现YOLO V4 tiny 在嵌入式设备上实现YOLO V4 tiny 目录结构 目录结构 |-- YOLO V4 tiny |-- .gitignore |-- LICENSE |-- README.md |-- test.txt |-- t

Liu-Wei 6 Sep 09, 2021
Pythonic particle-based (super-droplet) warm-rain/aqueous-chemistry cloud microphysics package with box, parcel & 1D/2D prescribed-flow examples in Python, Julia and Matlab

PySDM PySDM is a package for simulating the dynamics of population of particles. It is intended to serve as a building block for simulation systems mo

Atmospheric Cloud Simulation Group @ Jagiellonian University 32 Oct 18, 2022
MRQy is a quality assurance and checking tool for quantitative assessment of magnetic resonance imaging (MRI) data.

Front-end View Backend View Table of Contents Description Prerequisites Running Basic Information Measurements User Interface Feedback and usage Descr

Center for Computational Imaging and Personalized Diagnostics 58 Dec 02, 2022
Instant Real-Time Example-Based Style Transfer to Facial Videos

FaceBlit: Instant Real-Time Example-Based Style Transfer to Facial Videos The official implementation of FaceBlit: Instant Real-Time Example-Based Sty

Aneta Texler 131 Dec 19, 2022
Federated Deep Reinforcement Learning for the Distributed Control of NextG Wireless Networks.

FDRL-PC-Dyspan Federated Deep Reinforcement Learning for the Distributed Control of NextG Wireless Networks. This repository contains the entire code

Peyman Tehrani 17 Nov 18, 2022
Must-read Papers on Physics-Informed Neural Networks.

PINNpapers Contributed by IDRL lab. Introduction Physics-Informed Neural Network (PINN) has achieved great success in scientific computing since 2017.

IDRL 330 Jan 07, 2023
A medical imaging framework for Pytorch

Welcome to MedicalTorch MedicalTorch is an open-source framework for PyTorch, implementing an extensive set of loaders, pre-processors and datasets fo

Christian S. Perone 799 Jan 03, 2023
Api for getting bin info and getting encrypted card details for adyen.

Bin Info And Adyen Cse Enc Python api for getting bin info and getting encrypted

Roldex Stark 8 Dec 30, 2022
Sibur challange 2021 competition - 6 place

sibur challange 2021 Решение на 6 место: https://sibur.ai-community.com/competitions/5/tasks/13 Скор 1.4066/1.4159 public/private. Архитектура - однос

Ivan 5 Jan 11, 2022
An implementation of the research paper "Retina Blood Vessel Segmentation Using A U-Net Based Convolutional Neural Network"

Retina Blood Vessels Segmentation This is an implementation of the research paper "Retina Blood Vessel Segmentation Using A U-Net Based Convolutional

Srijarko Roy 23 Aug 20, 2022
The code for Expectation-Maximization Attention Networks for Semantic Segmentation (ICCV'2019 Oral)

EMANet News The bug in loading the pretrained model is now fixed. I have updated the .pth. To use it, download it again. EMANet-101 gets 80.99 on the

Xia Li 李夏 663 Nov 30, 2022