Python Biomedical-knowledge-graph Resources

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

SGTL - Spectral Graph Theory Library SGTL is a python library of spectral graph theory methods. The library is still very new and so there are many fe

ICS-Visualizer is an interactive Industrial Control Systems (ICS) network graph that contains up-to-date ICS metadata (Name, company, port, user manua

Overview Metrinome is an all-purpose tool for working with code complexity metrics. It can be used as both a REPL and API, and includes: Converters to

Py2neo Py2neo is a client library and toolkit for working with Neo4j from within Python applications. The library supports both Bolt and HTTP and prov

Cold Brew: Distilling Graph Node Representations with Incomplete or Missing Neighborhoods Introduction Graph Neural Networks (GNNs) have demonstrated

MassFormer This is the original implementation of MassFormer, a graph transformer for small molecule MS/MS prediction. Check out the preprint on arxiv

Homepage | Paper | Datasets | Leaderboard | Documentation Graph Robustness Benchmark (GRB) provides scalable, unified, modular, and reproducible evalu

Entity-Based Knowledge Conflicts in Question Answering Run Instructions | Paper | Citation | License This repository provides the Substitution Framewo

Polypharmacy - DDI - Synergy Survey The Survey Paper This repository accompanies our survey paper A Unified View of Relational Deep Learning for Polyp

Instance-conditional Knowledge Distillation for Object Detection This is a MegEngine implementation of the paper "Instance-conditional Knowledge Disti

GDN A tensorflow=1.13 implementation of Deconvolutional Networks on Graph Data (NeurIPS 2021) Abstract In this paper, we consider an inverse problem i

SGMNet Implementation PyTorch implementation of SGMNet for ICCV'21 paper "Learning to Match Features with Seeded Graph Matching Network", by Hongkai C

Knowledgeable Prompt-tuning: Incorporating Knowledge into Prompt Verbalizer for Text Classification

Towards Continual Knowledge Learning of Language Models This is the official github repository for Towards Continual Knowledge Learning of Language Mo

Adversarial Attacks on Knowledge Graph Embeddings via Instance Attribution Methods This is the code repository to accompany the EMNLP 2021 paper on ad

Geometric Graphs Generate knowledge graphs with interesting geometries, like lattices. Works on Python 3.9+ because it uses cool new features. Get out

CaGCN This repo is for source code of NeurIPS 2021 paper "Be Confident! Towards Trustworthy Graph Neural Networks via Confidence Calibration". Paper L

Polypharmacy - DDI - Synergy Survey The Survey Paper This repository accompanies our survey paper A Unified View of Relational Deep Learning for Polyp

ADGCL : Adversarial Graph Augmentation to Improve Graph Contrastive Learning Introduction This repo contains the Pytorch [1] implementation of Adversa

waltlabtools A collection of tools for biomedical research assay analysis in Python. Key Features Analysis for assays such as digital ELISA, including

Learning Graph Cellular Automata This code implements the experiments from the NeurIPS 2021 paper: "Learning Graph Cellular Automata" Daniele Grattaro

Graph-Refined Convolutional Network for Multimedia Recommendation with Implicit Feedback This is our Pytorch implementation for the paper: Yinwei Wei,

RHGN Source code for CIKM 2021 paper for Relation-aware Heterogeneous Graph for User Profiling Dependencies torch==1.6.0 torchvision==0.7.0 dgl==0.7.1

Cold Brew: Distilling Graph Node Representations with Incomplete or Missing Neighborhoods Introduction Graph Neural Networks (GNNs) have demonstrated

Edge Independent Graph Models Code for the paper: "On the Power of Edge Independent Graph Models" Sudhanshu Chanpuriya, Cameron Musco, Konstantinos So

IGCN : Image-to-graph convolutional network IGCN is a learning framework for 2D/3D deformable model registration and alignment, and shape reconstructi

LEAR The implementation our EMNLP 2021 paper "Enhanced Language Representation with Label Knowledge for Span Extraction". **The code is in the "master

RMNA: A Neighbor Aggregation-Based Knowledge Graph Representation Learning Model Using Rule Mining Our code is based on Learning Attention-based Embed

简体中文 | English PaddleClas 简介 飞桨图像识别套件PaddleClas是飞桨为工业界和学术界所准备的一个图像识别任务的工具集，助力使用者训练出更好的视觉模型和应用落地。 近期更新 2021.11.1 发布PP-ShiTu技术报告，新增饮料识别demo 2021.10.23 发

Data and Code for paper Outlining and Filling: Hierarchical Query Graph Generation for Answering Complex Questions over Knowledge Graph is available f

DSP: Trajectory Prediction with Graph-based Dual-scale Context Fusion Introduction This is the project page of the paper Lu Zhang, Peiliang Li, Jing C

Diverse Motion Stylization (Official) This is the official Pytorch implementation of this paper. Diverse Motion Stylization for Multiple Style Domains

DiscoNet: Learning Distilled Collaboration Graph for Multi-Agent Perception [NeurIPS 2021] Yiming Li, Shunli Ren, Pengxiang Wu, Siheng Chen, Chen Feng

A large-scale database for graph representation learning

Enhancing Knowledge Tracing via Adversarial Training This repository contains source code for the paper "Enhancing Knowledge Tracing via Adversarial T

UltraGCN This is our Pytorch implementation for our CIKM 2021 paper: Kelong Mao, Jieming Zhu, Xi Xiao, Biao Lu, Zhaowei Wang, Xiuqiang He. UltraGCN: A

GBK-GNN: Gated Bi-Kernel Graph Neural Networks for Modeling Both Homophily and Heterophily Abstract Graph Neural Networks (GNNs) are widely used on a

Digital Twin Mobility Profiling: A Spatio-Temporal Graph Learning Approach This is the implementation of traffic prediction code in DTMP based on PyTo

stock-graph-python Simple GUI python app to show a stocks graph performance. Made with Matplotlib and Tiingo. Tiingo API Key You will need to add your

CKDN The official implementation of the ICCV2021 paper "Learning Conditional Knowledge Distillation for Degraded-Reference Image Quality Assessment" O

Fast and Easy-to-use Distributed Graph Learning for PyTorch Geometric

Ansible Playbook Grapher ansible-playbook-grapher is a command line tool to create a graph representing your Ansible playbook plays, tasks and roles.

Graph Regularized Residual Subspace Clustering Network for hyperspectral image clustering

Heterogeneous Temporal Graph Neural Network This repository contains the datasets and source code of HTGNN. run_mag.ipynb is the training and testing

ConE: Cone Embeddings for Multi-Hop Reasoning over Knowledge Graphs This is the code of paper ConE: Cone Embeddings for Multi-Hop Reasoning over Knowl

Learning Graph Cellular Automata This code implements the experiments from the NeurIPS 2021 paper: "Learning Graph Cellular Automata" Daniele Grattaro

MosaicKD Code for NeurIPS-21 paper "Mosaicking to Distill: Knowledge Distillation from Out-of-Domain Data" 1. Motivation Natural images share common l

BMVC 2021 BI-GConv: Boundary-Aware Input-Dependent Graph Convolution for Biomedical Image Segmentation Necassary Dependencies: PyTorch 1.2.0 Python 3.

VACA Code repository for the paper "VACA: Designing Variational Graph Autoencoders for Interventional and Counterfactual Queries (arXiv)". The impleme

Rot-Pro : Modeling Transitivity by Projection in Knowledge Graph Embedding This repository contains the source code for the Rot-Pro model, presented a

Node Dependent Local Smoothing for Scalable Graph Learning Requirements Environments: Xeon Gold 5120 (CPU), 384GB(RAM), TITAN RTX (GPU), Ubuntu 16.04

MedMNIST Project (Website) | Dataset (Zenodo) | Paper (arXiv) | MedMNIST v1 (ISBI'21) Jiancheng Yang, Rui Shi, Donglai Wei, Zequan Liu, Lin Zhao, Bili

SparseCard Code for approximate graph reduction techniques for cardinality-based DSFM, from paper "Approximate Decomposable Submodular Function Minimi

Implementation for On Provable Benefits of Depth in Training Graph Convolutional Networks Setup This implementation is based on PyTorch = 1.0.0. Smal

SMORE: Knowledge Graph Completion and Multi-hop Reasoning in Massive Knowledge Graphs SMORE is a a versatile framework that scales multi-hop query emb

Hierarchical User Intent Graph Network for Multimedia Recommendation This is our Pytorch implementation for the paper: Hierarchical User Intent Graph

MosaicKD Code for NeurIPS-21 paper "Mosaicking to Distill: Knowledge Distillation from Out-of-Domain Data" 1. Motivation Natural images share common l

Video Matting via Consistency-Regularized Graph Neural Networks Project Page | Real Data | Paper Installation Our code has been tested on Python 3.7,

ConE: Cone Embeddings for Multi-Hop Reasoning over Knowledge Graphs This is the code of paper ConE: Cone Embeddings for Multi-Hop Reasoning over Knowl

Predicting lncRNA–protein interactions based on graph autoencoders and collaborative training Code for our paper "Predicting lncRNA–protein interactio

Nested Graph Neural Networks About Nested Graph Neural Network (NGNN) is a general framework to improve a base GNN's expressive power and performance.

Exponential Graph is Provably Efficient for Decentralized Deep Training This code repository is for the paper Exponential Graph is Provably Efficient

The HIST framework for stock trend forecasting The implementation of the paper "HIST: A Graph-based Framework for Stock Trend Forecasting via Mining C

Implementation for the paper: Probabilistic Entity Representation Model for Reasoning over Knowledge Graphs, Nurendra Choudhary, Nikhil Rao, Sumeet Ka

Unified Instance and Knowledge Alignment Pretraining for Aspect-based Sentiment Analysis Requirements python 3.7 pytorch-gpu 1.7 numpy 1.19.4 pytorch_

light-weight-depth-estimation Boosting Light-Weight Depth Estimation Via Knowledge Distillation, https://arxiv.org/abs/2105.06143 Junjie Hu, Chenyou F

The HIST framework for stock trend forecasting The implementation of the paper "HIST: A Graph-based Framework for Stock Trend Forecasting via Mining C

Directed Graph Contrastive Learning The PyTorch implementation of Directed Graph Contrastive Learning (DiGCL). In this paper, we present the first con

A PyTorch Implementation of GGNN This is a PyTorch implementation of the Gated Graph Sequence Neural Networks (GGNN) as described in the paper Gated G

Word Counter By EBUS Coding Club Count the frequency of letters or words in a text file and show a graph. Requirements Python 3.9 or higher matplotlib

DPGNN This repository is an official PyTorch(Geometric) implementation of DPGNN(DPGCN) in "Distance-wise Prototypical Graph Neural Network for Node Im

DyGED Dynamic Graph Event Detection Get Started pip install -r requirements.txt TODO Paper link to arxiv, and how to cite. Twitter Weather dataset tra

HMemNetworks Code and documentation for Harmonic Memory Networks, a series of models for compositionally assembling representations of graph elements

Random-walk Embedding Framework This repository is a reference implementation of the random-walk embedding framework as described in the paper: A Broa

CoVA: Context-aware Visual Attention for Webpage Information Extraction Abstract Webpage information extraction (WIE) is an important step to create k

SSKT(Accepted WACV2022) Concept map Dataset Image dataset CIFAR10 (torchvision) CIFAR100 (torchvision) STL10 (torchvision) Pascal VOC (torchvision) Im

Rce-KGQA A novel pipeline framework for multi-hop complex KGQA task. This framework mainly contains two modules, answering_filtering_module and relati

MRefG Wanli Li and Tieyun Qian: "Exploit a Multi-head Reference Graph for Semi-supervised Relation Extraction", IJCNN 2021 1. Requirements To reproduc

Neo4j Movies Application: Quick Start This example application demonstrates how easy it is to get started with Neo4j in Python. It is a very simple we

MCGC Description This is the code of "Multi-view Contrastive Graph Clustering" in NeurlPS 2021. Datasets Results ACM DBLP IMDB Amazon photos Amazon co

Djag Scheduler (Dj)ango Task D(AG) (Scheduler) Overview Djag scheduler associates scheduling information with celery tasks The task schedule is persis

Minesweeper-AI Created as part of CS50 AI's coursework. This AI makes use of knowledge entailment to calculate the best probabilities to win Minesweep

Spatial-Temporal Transformer for Dynamic Scene Graph Generation Pytorch Implementation of our paper Spatial-Temporal Transformer for Dynamic Scene Gra

graph_SSL Self-supervised learning on Graph Representation Learning (node-level task) How to run the code To run GRACE, sh run_GRACE.sh To run GCA, sh

Key Information Extraction from Scanned Invoices Key information extraction from invoice document with Graph Convolution Network Related blog post fro

Blog focused on skills enhancement and knowledge sharing. Tech Stack's: Vue.js, Django and Django-Ninja

ST This is the code of NeurIPS 2021 paper "Towards Enabling Meta-Learning from Target Models". If you use any content of this repo for your work, plea

Resilient UAV Swarm Communications with Graph Convolutional Neural Network This repository contains the source codes of Resilient UAV Swarm Communicat

Neural Lexicon Reader: Reduce Pronunciation Errors in End-to-end TTS by Leveraging External Textual Knowledge This is an implementation of the paper,

LMSOC: An Approach for Socially Sensitive Pretraining Code for reproducing the paper LMSOC: An Approach for Socially Sensitive Pretraining to appear a

KoPL: 面向知识的推理问答编程语言 安装 | 快速开始 | 文档 KoPL全称 Knowledge oriented Programing Language, 是一个为复杂推理问答而设计的编程语言。我们可以将自然语言问题表示为由基本函数组合而成的KoPL程序，程序运行的结果就是问题的答案。目前，

KnowPrompt Code and datasets for our paper "KnowPrompt: Knowledge-aware Prompt-tuning with Synergistic Optimization for Relation Extraction" Requireme

Learn Continually, Generalize Rapidly: Lifelong Knowledge Accumulation for Few-shot Learning This repo is for Findings at EMNLP 2021 paper: Learn Cont

stock-graph-python Simple CLI python app to show a stocks graph performance. Made with Matplotlib and Tiingo. Tiingo API Key You will need to add your

What is Retentioneering? Retentioneering is a Python framework and library to assist product analysts and marketing analysts as it makes it easier to

Code for the paper "PICK: Processing Key Information Extraction from Documents using Improved Graph Learning-Convolutional Networks" (ICPR 2020)

Graph Mining Author: Jiayi Chen Time: April 2021 Implemented Algorithms: Network: Scrabing Data, Network Construbtion and Network Measurement (e.g., P

Material de demonstração dos serviços: Watson Natural Language Understanding e Knowledge Studio Visão Geral: https://www.ibm.com/br-pt/cloud/watson-na

Scene Graph Benchmark in PyTorch 1.7 This project is based on maskrcnn-benchmark Highlights Upgrad to pytorch 1.7 Multi-GPU training and inference Bat