Python 3d-medical-imaging-segmentation Resources

PSPNet with PyTorch Unofficial implementation of "Pyramid Scene Parsing Network" (https://arxiv.org/abs/1612.01105). This repository is just for caffe

PSPNet_tensorflow Important Code is fine for inference. However, the training code is just for reference and might be only used for fine-tuning. If yo

PSPNet This is an unofficial implementation of Pyramid Scene Parsing Network (PSPNet) in Chainer. Training Requirement Python 3.4.4+ Chainer 3.0.0b1+

Multipath RefineNet A MATLAB based framework for semantic image segmentation and general dense prediction tasks on images. This is the source code for

ERFNet (PyTorch version) This code is a toolbox that uses PyTorch for training and evaluating the ERFNet architecture for semantic segmentation. For t

ERFNet This code is a toolbox that uses Torch library for training and evaluating the ERFNet architecture for semantic segmentation. NEW!! New PyTorch

Real-Time Semantic Segmentation in TensorFlow Perform pixel-wise semantic segmentation on high-resolution images in real-time with Image Cascade Netwo

ICNet_tensorflow This repo provides a TensorFlow-based implementation of paper "ICNet for Real-Time Semantic Segmentation on High-Resolution Images,"

Keras-ICNet [paper] Keras implementation of Real-Time Semantic Segmentation on High-Resolution Images. Training in progress! Requisites Python 3.6.3 K

ICNet for Real-Time Semantic Segmentation on High-Resolution Images by Hengshuang Zhao, Xiaojuan Qi, Xiaoyong Shen, Jianping Shi, Jiaya Jia, details a

PixelNet: Representation of the pixels, by the pixels, and for the pixels. We explore design principles for general pixel-level prediction problems, f

Multi-Scale Context Aggregation by Dilated Convolutions Introduction Properties of dilated convolution are discussed in our ICLR 2016 conference paper

Keras implementation of DilatedNet for semantic segmentation A native Keras implementation of semantic segmentation according to Multi-Scale Context A

The One Hundred Layers Tiramisu: Fully Convolutional DenseNets for Semantic Segmentation: Work In Progress, Results can't be replicated yet with the m

FC-DenseNet-Tensorflow This is a re-implementation of the 100 layer tiramisu, technically a fully convolutional DenseNet, in TensorFlow (Tiramisu). Th

Introduction This repo contains the code to train and evaluate FC-DenseNets as described in The One Hundred Layers Tiramisu: Fully Convolutional Dense

TensorFlow-ENet TensorFlow implementation of ENet: A Deep Neural Network Architecture for Real-Time Semantic Segmentation. This model was tested on th

segmentation TensorFlow implementation of ENet (https://arxiv.org/pdf/1606.02147.pdf) based on the official Torch implementation (https://github.com/e

ENet This work has been published in arXiv: ENet: A Deep Neural Network Architecture for Real-Time Semantic Segmentation. Packages: train contains too

ENet in Caffe Execution times and hardware requirements Network 1024x512 1280x720 Parameters Model size (fp32) ENet 20.4 ms 32.9 ms 0.36 M 1.5 MB SegN

FCN-8s implementation in TensorFlow Contents Overview Examples and demo video Dependencies How to use it Download pre-trained VGG-16 Overview This is

semantic-segmentation-tensorflow This is a Tensorflow implementation of semantic segmentation models on MIT ADE20K scene parsing dataset and Cityscape

Using fully convolutional networks for semantic segmentation (Shelhamer et al.) with caffe for the cityscapes dataset How to get started Download the

VGGSegmentation Segmentation vgg16 fcn - cityscapes Priprema skupa skripta prepare_dataset_downsampled.py Iz slika cityscapesa izrezuje haubu automobi

FCN-semantic-segmentation Simple end-to-end semantic segmentation using fully convolutional networks [1]. Takes a pretrained 34-layer ResNet [2], remo

Pytorch for Semantic Segmentation This repo has been deprecated currently and I will not maintain it. Meanwhile, I strongly recommend you can refer to

fcn - Fully Convolutional Networks Chainer implementation of Fully Convolutional Networks. Installation pip install fcn Inference Inference is done as

##A tensorflow implementation of Fully Convolutional Networks For Semantic Segmentation. #USAGE To run the trained classifier on some images: python w

FCN.tensorflow Tensorflow implementation of Fully Convolutional Networks for Semantic Segmentation (FCNs). The implementation is largely based on the

FCN_via_Keras FCN FCN (Fully Convolutional Network) is deep fully convolutional neural network architecture for semantic pixel-wise segmentation. This

Keras-FCN Fully convolutional networks and semantic segmentation with Keras. Models Models are found in models.py, and include ResNet and DenseNet bas

Update An example on how to integrate this code into your own semantic segmentation pipeline can be found in my KittiSeg project repository. tensorflo

Fully Convolutional Networks for Semantic Segmentation This is the reference implementation of the models and code for the fully convolutional network

MatConvNet implementation of the FCN models for semantic segmentation This package contains an implementation of the FCN models (training and evaluati

DeepLab with PyTorch This is an unofficial PyTorch implementation of DeepLab v2 [1] with a ResNet-101 backbone. COCO-Stuff dataset [2] and PASCAL VOC

Pytorch-segmentation-toolbox DOC Pytorch code for semantic segmentation. This is a minimal code to run PSPnet and Deeplabv3 on Cityscape dataset. Shor

Train DeepLab for Semantic Image Segmentation Martin Kersner, [email protected] This repository contains scripts for training DeepLab for Semantic I

DeepLab-ResNet-TensorFlow This is an (re-)implementation of DeepLab-ResNet in TensorFlow for semantic image segmentation on the PASCAL VOC dataset. Up

DeepLab-ResNet-TensorFlow This is an (re-)implementation of DeepLab-ResNet in TensorFlow for semantic image segmentation on the PASCAL VOC dataset. Fr

DeepLab Introduction DeepLab is a state-of-art deep learning system for semantic image segmentation built on top of Caffe. It combines densely-compute

SegNet SegNet is a model of semantic segmentation based on Fully Comvolutional Network. This repository contains the implementation of learning and te

SegNet SegNet is a TensorFlow implementation of the segmentation network proposed by Kendall et al., with cool features like strided deconvolution, a

Segnet is deep fully convolutional neural network architecture for semantic pixel-wise segmentation. This is implementation of http://arxiv.org/pdf/15

Semantic Segmentation in PyTorch Semantic Segmentation in PyTorch Requirements Main Features Models Datasets Losses Learning rate schedulers Data augm

Python library with Neural Networks for Image Segmentation based on Keras and TensorFlow. The main features of this library are: High level API (just

TernausNet: U-Net with VGG11 Encoder Pre-Trained on ImageNet for Image Segmentation By Vladimir Iglovikov and Alexey Shvets Introduction TernausNet is

Ultrasound Nerve Segmentation Challenge using Torchnet This repository acts as a starting point for someone who wants to start with the kaggle ultraso

Retina blood vessel segmentation with a convolution neural network (U-net) This repository contains the implementation of a convolutional neural netwo

Real-Time Semantic Segmentation in Mobile device This project is an example project of semantic segmentation for mobile real-time app. The architectur

Image Segmentation Keras : Implementation of Segnet, FCN, UNet, PSPNet and other models in Keras. Implementation of various Deep Image Segmentation mo

Tensorflow Unet Warning This project is discontinued in favour of a Tensorflow 2 compatible reimplementation of this project found under https://githu

Deep Learning Tutorial for Kaggle Ultrasound Nerve Segmentation competition, using Keras This tutorial shows how to use Keras library to build deep ne

ZF_UNET_224 Pretrained Model Modification of convolutional neural net "UNET" for image segmentation in Keras framework Requirements Python 3.*, Keras

Ultrasound nerve segmentation using Keras (1.0.7) Kaggle Ultrasound Nerve Segmentation competition [Keras] #Install (Ubuntu {14,16}, GPU) cuDNN requir

Deep Learning Tutorial for Kaggle Ultrasound Nerve Segmentation competition, using Keras This tutorial shows how to use Keras library to build deep ne

Implementation of deep learning framework -- Unet, using Keras The architecture was inspired by U-Net: Convolutional Networks for Biomedical Image Seg

Sparse deconvolution Python v0.3.0 Official Python implementation of the 'Sparse deconvolution', and the CPU (NumPy) and GPU (CuPy) calculation backen

AlbUNet-1D-2D-Tensorflow-Keras This repository contains 1D and 2D Signal Segmentation Model Builder for AlbUNet and several of its variants developed

The-Emergence-of-Objectness This is the official released code for our paper, The Emergence of Objectness: Learning Zero-Shot Segmentation from Videos

Boundary-aware Transformers for Skin Lesion Segmentation Introduction This is an official release of the paper Boundary-aware Transformers for Skin Le

Dense Unsupervised Learning for Video Segmentation This repository contains the official implementation of our paper: Dense Unsupervised Learning for

Efficient and intelligent interactive segmentation annotation software

Trans-Net Code for (Visual Boundary Knowledge Translation for Foreground Segmentation, AAAI2021). [https://ojs.aaai.org/index.php/AAAI/article/view/16

Flexible-CLmser: Regularized Feedback Connections for Biomedical Image Segmentation The skip connections in U-Net pass features from the levels of enc

FPS-Net Code for "FPS-Net: A convolutional fusion network for large-scale LiDAR point cloud segmentation", accepted by ISPRS journal of Photogrammetry

NLOS-OT Official implementation of NLOS-OT: Passive Non-Line-of-Sight Imaging Using Optimal Transport (IEEE TIP, accepted) Description In this reposit

Edge Tracing using Gaussian Process Regression Repository storing python module which implements a framework to trace individual edges in an image usi

AutomaticUSnavigation Investigating automatic navigation towards standard US views integrating MARL with the virtual US environment developed in CT2US

Brain-Image-Segmentation Segmentation of brain tissues in MRI image has a number of applications in diagnosis, surgical planning, and treatment of bra

Cellpose | A generalist algorithm for cell and nucleus segmentation. Cellpose was written by Carsen Stringer and Marius Pachitariu. To learn about Cel

Head-and-Neck-Tumour-Segmentation-and-Prediction-of-Patient-Survival Welcome to the Head and Neck Tumour Segmentation and Prediction of Patient Surviv

JaMIE: a Japanese Medical Information Extraction toolkit Joint Japanese Medical Problem, Modality and Relation Recognition The Train/Test phrases requ

Lung Segmentation with fastapi This app uses FastAPI as backend. Usage for app.py First install required libraries by running: pip install -r requirem

Equivariant Imaging: Learning Beyond the Range Space Equivariant Imaging: Learning Beyond the Range Space Dongdong Chen, Julián Tachella, Mike E. Davi

Multi-View Radar Semantic Segmentation Paper Multi-View Radar Semantic Segmentation, ICCV 2021. Arthur Ouaknine, Alasdair Newson, Patrick Pérez, Flore

HAIS Hierarchical Aggregation for 3D Instance Segmentation (ICCV 2021) by Shaoyu Chen, Jiemin Fang, Qian Zhang, Wenyu Liu, Xinggang Wang*. (*) Corresp

Perception-Aware Multi-Sensor Fusion for 3D LiDAR Semantic Segmentation (ICCV 2021) [中文|EN] 概述 本工作主要探索一种高效的多传感器（激光雷达和摄像头）融合点云语义分割方法。现有的多传感器融合方法主要将点云投影

Sparse-to-dense Feature Matching: Intra and Inter domain Cross-modal Learning in Domain Adaptation for 3D Semantic Segmentation This is the code relat

Single/Multiple Object Tracking and Segmentation Codes and comparison of recent single/multiple object tracking and segmentation. News 💥 AutoMatch is

Mining Latent Classes for Few-shot Segmentation Lihe Yang, Wei Zhuo, Lei Qi, Yinghuan Shi, Yang Gao. This codebase contains baseline of our paper Mini

Recurrent Mask Refinement for Few-Shot Medical Image Segmentation Steps Install any missing packages using pip or conda Preprocess each dataset using

TL;DR: CrossVIS (Crossover Learning for Fast Online Video Instance Segmentation) proposes a novel crossover learning paradigm to fully leverage rich c

DARS Code release for the paper "Re-distributing Biased Pseudo Labels for Semi-supervised Semantic Segmentation: A Baseline Investigation", ICCV 2021

Multi-Anchor Active Domain Adaptation for Semantic Segmentation Munan Ning*, Donghuan Lu*, Dong Wei†, Cheng Bian, Chenglang Yuan, Shuang Yu, Kai Ma, Y

PSS: Personalized Image Semantic Segmentation Paper PSS: Personalized Image Semantic Segmentation Yu Zhang, Chang-Bin Zhang, Peng-Tao Jiang, Ming-Ming

FaPN: Feature-aligned Pyramid Network for Dense Image Prediction [arXiv] [Project Page] @inproceedings{ huang2021fapn, title={{FaPN}: Feature-alig

ICCV2021 Papers with Code

CMaskTrack R-CNN for OVIS This repo serves as the official code release of the CMaskTrack R-CNN model on the Occluded Video Instance Segmentation data

Barbershop: GAN-based Image Compositing using Segmentation Masks Barbershop: GAN-based Image Compositing using Segmentation Masks Peihao Zhu, Rameen A

Semisupervised Multitask Learning This repository is an unofficial and slightly modified implementation of UM-Adapt[1] using PyTorch. This code primar

meddlr Getting Started Meddlr is a config-driven ML framework built to simplify medical image reconstruction and analysis problems. Installation To av

fly2p Tools for analyzing two-photon (2p) imaging data collected with Vidrio Scanimage software and micromanger. Loading scanimage data relies on scan

OpenCV-ToothPaint3-Advanced-Digital-Image-Editor This application named ‘Tooth Paint’ version TP_2020.3 (64-bit) or version 3 was developed within a w

WORD: Revisiting Organs Segmentation in the Whole Abdominal Region. This repository provides the codebase and dataset for our work WORD: Revisiting Or

FullBodyFilter A Learning-Based Data Collection Tool For Human Segmentation Contents Documentation Source Code and Scripts Overview of Project Usage O

CFPNet: Channel-Wise Feature Pyramid for Real-Time Semantic Segmentation This project contains the Pytorch implementation for the proposed CFPNet: pap

SegmentationPipeline -- Pytorch A simple pytorch pipeline for semantic segmentation. Requirements : torch=1.9.0 tqdm albumentations=1.0.3 opencv-pyt

DistMIS Distributing Deep Learning Hyperparameter Tuning for 3D Medical Image Segmentation. DistriMIS Distributing Deep Learning Hyperparameter Tuning

VoxHRNet This is the official implementation of the following paper: Whole Brain Segmentation with Full Volume Neural Network Yeshu Li, Jonathan Cui,

MedAI: Transparency in Medical Image Segmentation What is this repo This repo contains the code and experiments that are implemented to contribute in