Python Neurips19-graph-protein-design Resources

Degree-Quant This repo provides a clean re-implementation of the code associated with the paper Degree-Quant: Quantization-Aware Training for Graph Ne

ProcrustEs-KGE Paddle implementation for Highly Efficient Knowledge Graph Embedding Learning with Orthogonal Procrustes Analysis 🙈 A more detailed re

How Attentive are Graph Attention Networks? This repository is the official implementation of How Attentive are Graph Attention Networks?. The PyTorch

ProteinLM We pretrain protein language model based on Megatron-LM framework, and then evaluate the pretrained model results on TAPE (Tasks Assessing P

QLUSTER is a relative orbit design tool for formation flying satellite missions and space rendezvous scenarios, that I wrote in Python 3 for my own research and visualisation. It is currently unfinished (95%) but the core algorithm and app works. Here's an example snippet of the GUI where four deputy satellites are orbiting a single chief in LEO.

Implementation of paper DeepTag: A General Framework for Fiducial Marker Design and Detection. Project page: https://herohuyongtao.github.io/research/

ProteinBERT - Pytorch (wip) Implementation of ProteinBERT in Pytorch. Original Repository Install $ pip install protein-bert-pytorch Usage import torc

SumGNN: Multi-typed Drug Interaction Prediction via Efficient Knowledge Graph Summarization This is the code for our paper ``SumGNN: Multi-typed Drug

GCN-LPA This repository is the implementation of GCN-LPA (arXiv): Unifying Graph Convolutional Neural Networks and Label Propagation Hongwei Wang, Jur

Simple Spectral Graph Convolutional Overview This repo contains an example implementation of the Simple Spectral Graph Convolutional (S^2GC) model. Th

Grapy-ML: Graph Pyramid Mutual Learning for Cross-dataset Human Parsing This repository contains pytorch source code for AAAI2020 oral paper: Grapy-ML

Factor graphs + nonlinear optimization in JAX

OEIS explorer This is a tool for exploring two different kinds of relationships between sequences in the OEIS: mentions (links) of other sequences on

ProteinBERT - Pytorch (wip) Implementation of ProteinBERT in Pytorch. Original Repository Install $ pip install protein-bert-pytorch Usage import torc

ProteinBERT is a universal protein language model pretrained on ~106M proteins from the UniRef90 dataset. Through its Python API, the pretrained model can be fine-tuned on any protein-related task in a matter of minutes. Based on our experiments with a wide range of benchmarks, ProteinBERT usually achieves state-of-the-art performance. ProteinBERT is built on TenforFlow/Keras.

DeepFRI Deep functional residue identification Citing @article {Gligorijevic2019, author = {Gligorijevic, Vladimir and Renfrew, P. Douglas and Koscio

Deep Learning Visuals contains 215 unique images divided in 23 categories (some images may appear in more than one category). All the images were originally published in my book "Deep Learning with PyTorch Step-by-Step: A Beginner's Guide".

Image Crop Analysis This is a repo for the code used for reproducing our Image Crop Analysis paper as shared on our blog post. If you plan to use this

If the compilation is successful, the evaluator of cpp implementation will be called automatically. Otherwise, the evaluator of python implementation will be called.

DDAMS This is the pytorch code for our IJCAI 2021 paper Dialogue Discourse-Aware Graph Model and Data Augmentation for Meeting Summarization [Arxiv Pr

An Unsupervised Graph-based Toolbox for Fraud Detection Introduction: UGFraud is an unsupervised graph-based fraud detection toolbox that integrates s

When2com: Multi-Agent Perception via Communication Graph Grouping This is the PyTorch implementation of our paper: When2com: Multi-Agent Perception vi

Expressive Power of Invariant and Equivaraint Graph Neural Networks In this repository, we show how to use powerful GNN (2-FGNN) to solve a graph alig

GCA Source code for Graph Contrastive Learning with Adaptive Augmentation (WWW 2021) For example, to run GCA-Degree under WikiCS, execute: python trai

python_graphs This package is for computing graph representations of Python programs for machine learning applications. It includes the following modu

PairRE Code for paper PairRE: Knowledge Graph Embeddings via Paired Relation Vectors. This implementation of PairRE for Open Graph Benchmak datasets (

ShineOn: Illuminating Design Choices for Practical Video-based Virtual Clothing Try-on [ Paper ] [ Project Page ] This repository contains the code fo

Karate Club is an unsupervised machine learning extension library for NetworkX. Please look at the Documentation, relevant Paper, Promo Video, and Ext

SkipGNN: Predicting Molecular Interactions with Skip-Graph Networks Molecular interaction networks are powerful resources for the discovery. While dee

Graph-Based Protein Design This repo contains code for Generative Models for Graph-Based Protein Design by John Ingraham, Vikas Garg, Regina Barzilay

Django Material Administration Quick start pip install django-material-admin Add material.admin and material.admin.default to your INSTALLED_APPS sett

Desmos Bezier Renderer A simple image/video to Desmos graph converter run locally Sample Result Setup Install dependencies apt update apt install git

FedGraphNN: A Federated Learning System and Benchmark for Graph Neural Networks A Research-oriented Federated Learning Library and Benchmark Platform

Beyond Homophily in Graph Neural Networks: Current Limitations and Effective Designs Jiong Zhu, Yujun Yan, Lingxiao Zhao, Mark Heimann, Leman Akoglu,

Graph Evolving Meta-Learning for Low-resource Medical Dialogue Generation Code to be further cleaned... This repo contains the code of the following p

Twins: Revisiting the Design of Spatial Attention in Vision Transformers Very recently, a variety of vision transformer architectures for dense predic

Datamol is a python library to work with molecules. It's a layer built on top of RDKit and aims to be as light as possible.

Structural basis for solubility in protein expression systems Large-scale protein production for biotechnology and biopharmaceutical applications rely

Introduction This is the PyTorch implementation for Adaptive Graph Representation Learning for Video Person Re-identification. Get started git clone h

Learning Knowledge Bases with Parameters for Task-Oriented Dialogue Systems This is the implementation of the paper: Learning Knowledge Bases with Par

End-to-End Optimization of Scene Layout Code release for: End-to-End Optimization of Scene Layout CVPR 2020 (Oral) Project site, Bibtex For help conta

PyKale is a PyTorch library for multimodal learning and transfer learning as well as deep learning and dimensionality reduction on graphs, images, texts, and videos. By adopting a unified pipeline-based API design, PyKale enforces standardization and minimalism, via reusing existing resources, reducing repetitions and redundancy, and recycling learning models across areas.

Smart Flip Clock 3D printed smart clock that puts a new twist on old technology. Making The Smart Flip Clock The first thing that must be done for thi

Datamol is a python library to work with molecules. It's a layer built on top of RDKit and aims to be as light as possible.

This repository contains code to train and test GNN models for recommendation, mainly using the Deep Graph Library (DGL).

SpikeX is a collection of pipes ready to be plugged in a spaCy pipeline. It aims to help in building knowledge extraction tools with almost-zero effort.

AutoSF The code for our paper "AutoSF: Searching Scoring Functions for Knowledge Graph Embedding" and this paper has been accepted by ICDE2020. News:

Few-shot Graph Learning for Molecular Property Prediction Introduction This is the source code and dataset for the following paper: Few-shot Graph Lea

Tired of playing with font sizes and other matplotlib parameters every time you start a new project or write a new plotting function? Want all you plots have the same style? Use matplotlib configuration files!

The dataTap Python library is the primary interface for using dataTap's rich data management tools. Create datasets, stream annotations, and analyze model performance all with one library.

Knowledge Graph,Question Answering System，基于知识图谱和向量检索的医疗诊断问答系统

GraphMask This repository contains an implementation of GraphMask, the interpretability technique for graph neural networks presented in our ICLR 2021

libmaths libmaths was created not only as a learning experience for me, but as a way to make mathematical models in seconds for Python users using mat

Neighbor Averaging over Relation Subgraphs (NARS) NARS is an algorithm for node classification on heterogeneous graphs, based on scalable neighbor ave

My Body is a Cage: the Role of Morphology in Graph-Based Incompatible Control

QA-GNN: Question Answering using Language Models and Knowledge Graphs This repo provides the source code & data of our paper: QA-GNN: Reasoning with L

AutoOED is an optimal experiment design platform powered with automated machine learning to accelerate the discovery of optimal solutions. Our platform solves multi-objective optimization problems and automatically guides the design of experiment to be evaluated.

DomainCAT (Domain Connectivity Analysis Tool) Domain Connectivity Analysis Tool is used to analyze aggregate connectivity patterns across a set of dom

Comprehensive and Rigorous Framework for Reproducible Recommender Systems Evaluation

peartree 🍐 🌳 peartree is a library for converting GTFS feed schedules into a representative directed network graph. The tool uses Partridge to conve

OSMnet Tools for the extraction of OpenStreetMap (OSM) street network data. Intended to be used in tandem with Pandana and UrbanAccess libraries to ex

PyTorch code for the paper "Curriculum Graph Co-Teaching for Multi-target Domain Adaptation" (CVPR2021) This repo presents PyTorch implementation of M

STAR-FC This code is the implementation for the CVPR 2021 paper "Structure-Aware Face Clustering on a Large-Scale Graph with 10^7 Nodes" 🌟 🌟 . 🎓 Re

FAU Implementation of the paper: Facial Action Unit Intensity Estimation via Semantic Correspondence Learning with Dynamic Graph Convolution. Yingruo

NetworkX is a Python package for the creation, manipulation, and study of the structure, dynamics, and functions of complex networks.

Rethinking Graph Neural Architecture Search from Message-passing Intro The GNAS can automatically learn better architecture with the optimal depth of

Script-server is a Web UI for scripts. As an administrator, you add your existing scripts into Script server and other users would be ab

SiamGAT 1. Environment setup This code has been tested on Ubuntu 16.04, Python 3.5, Pytorch 1.2.0, CUDA 9.0. Please install related libraries before r

A Critical Assessment of State-of-the-Art in Entity Alignment This repository contains the source code for the paper A Critical Assessment of State-of

Spectral Temporal Graph Neural Network for Multivariate Time-series Forecasting This repository is the official implementation of Spectral Temporal Gr

Disclaimer This project is stable and being incubated for long-term support. It may contain new experimental code, for which APIs are subject to chang

skggm : Gaussian graphical models using the scikit-learn API In the last decade, learning networks that encode conditional independence relationships

cuGraph - GPU Graph Analytics The RAPIDS cuGraph library is a collection of GPU accelerated graph algorithms that process data found in GPU DataFrames

CoMatch: Semi-supervised Learning with Contrastive Graph Regularization (Salesforce Research) This is a PyTorch implementation of the CoMatch paper [B

CDFI (Compression-Driven-Frame-Interpolation) [Paper] (Coming soon...) | [arXiv] Tianyu Ding*, Luming Liang*, Zhihui Zhu, Ilya Zharkov IEEE Conference

QC-DGM This is the official PyTorch implementation and models for our CVPR 2021 paper: Deep Graph Matching under Quadratic Constraint. It also contain

Deep GNN, Shallow Sampling Hanqing Zeng, Muhan Zhang, Yinglong Xia, Ajitesh Srivastava, Andrey Malevich, Rajgopal Kannan, Viktor Prasanna, Long Jin, R

Open Semantic Search https://opensemanticsearch.org Integrated search server, ETL framework for document processing (crawling, text extraction, text a

FiGNN for CTR prediction The code and data for our paper in CIKM2019: Fi-GNN: Modeling Feature Interactions via Graph Neural Networks for CTR Predicti

DeepSphere-Weather - Deep Learning on the sphere for weather/climate applications. The code in this repository provides a scalable and flexible framew

Implicit Graph Neural Networks This repository is the official PyTorch implementation of "Implicit Graph Neural Networks". Fangda Gu*, Heng Chang*, We

Learning Intents behind Interactions with Knowledge Graph for Recommendation This is our PyTorch implementation for the paper: Xiang Wang, Tinglin Hua

tf-fsvd TensorFlow Implementation of Functional Singular Value Decomposition for paper Fast Graph Learning with Unique Optimal Solutions Cite If you f

SuperGAT Official implementation of Self-supervised Graph Attention Networks (SuperGAT). This model is presented at How to Find Your Friendly Neighbor

yacv: Yet Another Compiler Visualizer yacv is a tool for visualizing various aspects of typical LL(1) and LR parsers. Check out demo on YouTube to see

skggm : Gaussian graphical models using the scikit-learn API In the last decade, learning networks that encode conditional independence relationships

QKeras github.com/google/qkeras QKeras 0.8 highlights: Automatic quantization using QKeras; Stochastic behavior (including stochastic rouding) is disa

Welcome to Spektral Spektral is a Python library for graph deep learning, based on the Keras API and TensorFlow 2. The main goal of this project is to

Documentation | Paper | Colab Notebooks | External Resources | OGB Examples PyTorch Geometric (PyG) is a geometric deep learning extension library for

Little Ball of Fur is a graph sampling extension library for Python. Please look at the Documentation, relevant Paper, Promo video and External Resour

Karate Club is an unsupervised machine learning extension library for NetworkX. Please look at the Documentation, relevant Paper, Promo Video, and Ext

EGNN - Pytorch Implementation of E(n)-Equivariant Graph Neural Networks, in Pytorch. May be eventually used for Alphafold2 replication. This

E(n)-Equivariant Transformer (wip) Implementation of E(n)-Equivariant Transformer, which extends the ideas from Welling's E(n)-Equivariant G

PI Zero W Audio Book Motivation and requirements My dad is practically blind and at 80 years has trouble hearing and operating tiny or more complicate

libmaths was created not only as a learning experience for me, but as a way to make mathematical models in seconds for Python users using mat

Predicting Patient Outcomes with Graph Representation Learning This repository contains the code used for Predicting Patient Outcomes with Graph Repre

Notion Graph View Export Notion pages to a Roam Research like graph view.

A PyTorch implementation of "Pathfinder Discovery Networks for Neural Message Passing" (WebConf 2021). Abstract In this work we propose Pathfind

Differentiable molecular simulation of proteins with a coarse-grained potential This repository contains the learned potential, simulation scripts and

This is the official PyTorch implementation of our paper: "Joint Object Detection and Multi-Object Tracking with Graph Neural Networks". Our project website and video demos are here.