Python Biomedical-knowledge-graph Resources

This repository is an official PyTorch(Geometric) implementation of G^2GNN in "Imbalanced Graph Classification via Graph-of-Graph Neural Networks". Th

Efficient Graph Similarity Computation - (EGSC) This repo contains the source code and dataset for our paper: Slow Learning and Fast Inference: Effici

Knowledge-enhanced Contrastive Learning (KCL) Molecular Contrastive Learning with Chemical Element Knowledge Graph [ AAAI 2022 ]. We construct a Chemi

GSAN Introduction Code for paper GSAN: Graph Self-Attention Network for Learning Spatial-Temporal Interaction Representation in Autonomous Driving, wh

ts2vg: Time series to visibility graphs The Python ts2vg package provides high-performance algorithm implementations to build visibility graphs from t

FKD: A Fast Knowledge Distillation Framework for Visual Recognition Official PyTorch implementation of paper A Fast Knowledge Distillation Framework f

PLUR (Programming-Language Understanding and Repair) is a collection of source code datasets suitable for graph-based machine learning. We provide scripts for downloading, processing, and loading the datasets. This is done by offering a unified API and data structures for all datasets.

Tools for curating biomedical training data for large-scale language modeling

Open Sesame This repository contains the code for the paper Open Sesame: Getting Inside BERT's Linguistic Knowledge. Credits We built the project on t

KnowledgeEditor Code for Editing Factual Knowledge in Language Models (https://arxiv.org/abs/2104.08164). @inproceedings{decao2021editing, title={Ed

LANKA This is the source code for paper: Knowledgeable or Educated Guess? Revisiting Language Models as Knowledge Bases (ACL 2021, long paper) Referen

Pretrained Language Model This repository provides the latest pretrained language models and its related optimization techniques developed by Huawei N

EasyTransfer is designed to make the development of transfer learning in NLP applications easier. The literature has witnessed the success of applying

#Sentic GCN Introduction This repository was used in our paper: Aspect-Based Sentiment Analysis via Affective Knowledge Enhanced Graph Convolutional N

multilingual-mrc-isdg Code for the AAAI 2022 paper "Zero-Shot Cross-Lingual Machine Reading Comprehension via Inter-Sentence Dependency Graph". This r

Self-Supervised Graph Representation Learning via Topology Transformations This repository is the official PyTorch implementation of the following pap

decentralized-gnn A package for implementing and simulating decentralized Graph Neural Network algorithms for classification of peer-to-peer nodes. De

Decoding the Protein-ligand Interactions Using Parallel Graph Neural Networks Requirements python 0.10+ rdkit 2020.03.3.0 biopython 1.78 openbabel 2.4

Comprehensive Knowledge Distillation with Causal Intervention This repository is a PyTorch implementation of "Comprehensive Knowledge Distillation wit

PyContinual (An Easy and Extendible Framework for Continual Learning) Easy to Use You can sumply change the baseline, backbone and task, and then read

Adversarial Attacks on Graph Classification via Bayesian Optimisation @ NeurIPS 2021 This repository contains the official implementation of GRABNEL,

Discovering Dynamic Salient Regions with Spatio-Temporal Graph Neural Networks This is the official code for DyReg model inroduced in Discovering Dyna

Graph Neural Topic Model (GNTM) This is the pytorch implementation of the paper "Topic Modeling Revisited: A Document Graph-based Neural Network Persp

Graph Augmentation Graph augmentation/self-supervision/etc. Algorithms gcn gcn+virtual node gin gin+virtual node PNA GraphTrans Augmentation methods N

ReFine: Multi-Grained Explainability for GNNs We are trying hard to update the code, but it may take a while to complete due to our tight schedule rec

EIGNN: Efficient Infinite-Depth Graph Neural Networks The official implementation of EIGNN: Efficient Infinite-Depth Graph Neural Networks (NeurIPS 20

Directed Graph Contrastive Learning Paper | Poster | Supplementary The PyTorch implementation of Directed Graph Contrastive Learning (DiGCL). In this

Code for "Solving Graph-based Public Good Games with Tree Search and Imitation Learning" This is the code for the paper Solving Graph-based Public Goo

Introduction This repository is the official PyTorch implementation of Data-free Knowledge Distillation for Object Detection, WACV 2021. Data-free Kno

PyDGN Wiki Description This is a Python library to easily experiment with Deep Graph Networks (DGNs). It provides automatic management of data splitti

Unsupervised Image Denoising with Frequency Domain Knowledge (BMVC 2021 Oral) : Official Project Page This repository provides the official PyTorch im

Description The source code and data for my paper titled Linguistic Knowledge in Data Augmentation for Natural Language Processing: An Example on Chin

ESP32-IoT-button-graph-test ESP32 recording button presses, and serving webpage via webSockets in order to graph the responses. The objective was to t

Unsupervised Image Denoising with Frequency Domain Knowledge (BMVC 2021 Oral) : Official Project Page This repository provides the official PyTorch im

Data and evaluation code for the paper WikiNEuRal: Combined Neural and Knowledge-based Silver Data Creation for Multilingual NER. @inproceedings{tedes

GraphRNN: Generating Realistic Graphs with Deep Auto-regressive Model This repository is the official PyTorch implementation of GraphRNN, a graph gene

Knowledge Enhanced Sports Game Summarization Cooming Soon! :) Data will be released after approval process. Code will be published once the author of

KDD CUP 2020: AutoGraph Team: aister Members: Jianqiang Huang, Xingyuan Tang, Mingjian Chen, Jin Xu, Bohang Zheng, Yi Qi, Ke Hu, Jun Lei Team Introduc

Repository for the paper "Graph Auto-Encoders for Financial Clustering" Requirements Python 3.6 torch torch_geometric Instructions This is a simple c

🔍 E-Commerce recommender demo 🔍 This is a simple stream setup that uses Memgraph to ingest real-time data from a simulated online store. Data is str

Patient Knowledge Distillation for BERT Model Compression Knowledge distillation for BERT model Installation Run command below to install the environm

Steps to run = Download the cora dataset from this link : https://linqs.soe.ucsc.edu/data unzip the files in the folder input/cora cd code python eda

OANet implementation Pytorch implementation of OANet for ICCV'19 paper "Learning Two-View Correspondences and Geometry Using Order-Aware Network", by

Calculator 🖩 A simple calculator written in python allows you to make simple calculations, write charts, calculate the dates, and exchange currency.

SPTAG: A library for fast approximate nearest neighbor search SPTAG SPTAG (Space Partition Tree And Graph) is a library for large scale vector approxi

This repository holds the implementation for paper Towards Open-World Feature Extrapolation: An Inductive Graph Learning Approach Download our preproc

Parameterized Hypercomplex Graph Neural Networks (PHC-GNNs) PHC-GNNs (Le et al., 2021): https://arxiv.org/abs/2103.16584 PHM Linear Layer Illustration

SSR (NeurIPS 2021) Pytorch implementation of paper "Re-ranking for image retrieval and transductivefew-shot classification" [Paper] [Project webpage]

SAGCN - Official PyTorch Implementation | Paper | Project Page This is the official implementation of the paper "Steganographer detection via a simila

g2o - General Graph Optimization Linux: Windows: g2o is an open-source C++ framework for optimizing graph-based nonlinear error functions. g2o has bee

ADGC: Awesome Deep Graph Clustering ADGC is a collection of state-of-the-art (SOTA), novel deep graph clustering methods (papers, codes and datasets).

Orbitals in Python A small collection of tools made by me, that you can use to visualize atomic orbitals in both 2D and 3D in different aspects, and o

SURGE: Sequential Recommendation with Graph Neural Networks This is our TensorFlow implementation for the paper: Sequential Recommendation with Graph

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

ChebLieNet: Invariant spectral graph NNs turned equivariant by Riemannian geometry on Lie groups Hugo Aguettaz, Erik J. Bekkers, Michaël Defferrard We

EvDistill: Asynchronous Events to End-task Learning via Bidirectional Reconstruction-guided Cross-modal Knowledge Distillation (CVPR'21) Citation If y

Dynamic-Graphs-Construction Official Codes for Graph Modularity:Towards Understanding the Cross-Layer Transition of Feature Representations in Deep Ne

2s-AGCN Two-Stream Adaptive Graph Convolutional Networks for Skeleton-Based Action Recognition in CVPR19 Note PyTorch version should be 0.3! For PyTor

5ePy is an experimental project I'm undertaking for the sole purpose of increasing my Python knowledge. #Goals Goal: Create a working, albeit lightwei

Fine-grained Sentiment Analysis as Dependency Graph Parsing This repository contains the code and datasets described in following paper: Fine-grained

SwisE Switch spaces for knowledge graph embeddings. Requirements: python3 pytorch numpy tqdm Reproduce the results To reproduce the reported results,

Fasterai fasterai is a library created to make neural network smaller and faster. It essentially relies on common compression techniques for networks

Graph Convolutional Gated Recurrent Neural Network (GCGRNN) Improved from Graph Convolutional Neural Networks with Data-driven Graph Filter (GCNN-DDGF

FGD Paper: Focal and Global Knowledge Distillation for Detectors Install MMDetection and MS COCO2017 Our codes are based on MMDetection. Please follow

Awesome Streamlit The fastest way to build Awesome Tools and Apps! Powered by Python! The purpose of this project is to share knowledge on how Awesome

Overview of OpenPNM OpenPNM is a comprehensive framework for performing pore network simulations of porous materials. More Information For more detail

DA2Lite (Deep Architecture to Lite) is a toolkit to compress and accelerate deep network models. ⭐ Star us on GitHub — it helps!! Frameworks & Librari

Introduction The field of connectomics aims to reconstruct the wiring diagram of the brain by mapping the neural connections at the level of individua

SegDistill: Toolbox for Knowledge Distillation on Semantic Segmentation Networks This repo contains the supported code and configuration files for Seg

Pigment The problem of partitioning up a skincare regime into parts such that each part does not interfere with itself is equivalent to the minimal cl

Code has been run on Google Colab, thanks Google for providing computational resources Contents Natural Language Processing（自然语言处理） Text Classificati

Ohm-s-Law-Visualizer It's an application to calculate I from v and r using Ohm's Law. It can also plot a graph between V vs I. Story I'm doing my Unde

Implementing Graph Convolutional Networks and Information Retrieval Mechanisms using pure Python and NumPy

GN-Transformer AST This is the official repository for the paper "GN-Transformer: Fusing AST and Source Code information in Graph Networks". Data Prep

English | 简体中文 Latest News 2021.10.25 Paper "Docking-based Virtual Screening with Multi-Task Learning" is accepted by BIBM 2021. 2021.07.29 PaddleHeli

GemNet: Universal Directional Graph Neural Networks for Molecules Reference implementation in PyTorch of the geometric message passing neural network

TensorFlow GNN This is an early (alpha) release to get community feedback. It's under active development and we may break API compatibility in the fut

GNet-pose Project Page: http://guanghan.info/projects/guided-fractal/ UPDATE 9/27/2018: Prototxts and model that achieved 93.9Pck on LSP dataset. http

Some tentative models that incorporate label propagation to graph neural networks for graph representation learning in nodes, links or graphs.

Housegan-data-reader House-GAN++ (data-reader) Code and instructions for converting rplan dataset (raster images) to housegan++ data format. House-GAN

Graph Nets library Graph Nets is DeepMind's library for building graph networks in Tensorflow and Sonnet. Contact [email protected] for comments a

CG3 This is the repository for the AAAI 21 paper [Contrastive and Generative Graph Convolutional Networks for Graph-based Semi-Supervised Learning]. R

Open-KG-canonicalization The software associated with a paper accepted at EMNLP 2021 titled "Open Knowledge Graphs Canonicalization using Variational

Time2box Implementation of [Time in a Box: Advancing Knowledge Graph Completion with Temporal Scopes].

Robust and Accurate Object Detection via Self-Knowledge Distillation paper:https://arxiv.org/abs/2111.07239 Environments Python 3.7 Cuda 10.1 Prepare

Zero-Shot Learning in Named Entity Recognition with Common Sense Knowledge Associated code for the paper Zero-Shot Learning in Named Entity Recognitio

RobustBioNLP Improving the robustness and performance of biomedical NLP models through adversarial training In this repository you can find suppliment

HaloGraphNet Predict halo masses from simulations via Graph Neural Networks. Given a dark matter halo and its galaxies, creates a graph with informati

Interpreting Language Models Through Knowledge Graph Extraction Idea: How do we interpret what a language model learns at various stages of training?

Knowledge Base Completion Meets Transfer Learning This code accompanies the paper Knowledge Base Completion Meets Transfer Learning published at EMNLP

EZ-Graph EZ Graph is a GUI that allows users to make and train neural networks without writing a single line of code. Requirements python 3 pandas num

Medical Image Segmentation with Guided Attention This repository contains the code of our paper: "'Multi-scale self-guided attention for medical image

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

GATER This repository contains the code for our EMNLP 2021 paper “Heterogeneous Graph Neural Networks for Keyphrase Generation”. Our implementation is

GraphWar: Arms Race in Graph Adversarial Learning NOTE: GraphWar is still in the early stages and the API will likely continue to change. 🚀 Installat

GOAT A paper using optimal transport to solve the graph matching problem. https://arxiv.org/abs/2111.05366 Repo structure .github: Files specifying ho

isvd Official implementation of NeurIPS'21: Implicit SVD for Graph Representation Learning If you find this code useful, you may cite us as: @inprocee

Climate Modeling with Neural Diffusion Equation Introduction This is the repository of our accepted ICDM 2021 paper "Climate Modeling with Neural Diff

This is a sport analytics project that combines the knowledge of Object Oriented Programming (OOP) and Webscraping, the weekly scraping of the English Premier league table is carried out to assess the performance of each club from the beginning of the season to the end.

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