phamidko

topaz

Pipeline for particle picking in cryo-electron microscopy images using convolutional neural networks trained from positive and unlabeled examples. Also featuring micrograph and tomogram denoising with DNNs.

IntaRNA

Efficient target prediction incorporating accessibility of interaction sites

bpRNA

bpRNA: Large-scale Annotation and Analysis of RNA Secondary Structure

basenji

Sequential regulatory activity predictions with deep convolutional neural networks.

Marcosuff.github.io

Deep learning & Drug Discovery

Generative-Molecules

SPOT-RNA

RNA Secondary Structure Prediction using an Ensemble of Two-dimensional Deep Neural Networks and Transfer Learning.

ncRNA-family-prediction

Code for the paper ncRNA Classification with Graph Convolutional Networks by E. Rossi et. al.

RNAonGraph

A repository for neural representational learning of RNA secondary structures

molecularGNN_smiles

The code of a graph neural network (GNN) for molecules, which is based on learning representations of r-radius subgraphs (i.e., fingerprints) in molecules.

CPI_prediction

This is a code for compound-protein interaction (CPI) prediction based on a graph neural network (GNN) for compounds and a convolutional neural network (CNN) for proteins.

molecularGNN_3Dstructure

Graph neural network (GNN) for molecular property prediction (3D structure)

40-Algorithms-Every-Programmer-Should-Know

40 Algorithms Every Programmer Should Know, published by Packt

ann-visualizer

A python library for visualizing Artificial Neural Networks (ANN)

applied-ml

📚 Papers & tech blogs by companies sharing their work on data science & machine learning in production.

Getting-Things-Done-with-Pytorch

Jupyter Notebook tutorials on solving real-world problems with Machine Learning & Deep Learning using PyTorch. Topics: Face detection with Detectron 2, Time Series anomaly detection with LSTM Autoencoders, Object Detection with YOLO v5, Build your first Neural Network, Time Series forecasting for Coronavirus daily cases, Sentiment Analysis with BER

MetabolicPathwayPrediction

PyTorch-learners-tutorial

PyTorch tutorial for learners

Struct2Graph

A PyTorch implementation of GCN with mutual attention for protein-protein interaction prediction

deepchem

Democratizing Deep-Learning for Drug Discovery, Quantum Chemistry, Materials Science and Biology

DeepFRI

Deep functional residue identification

weightnorm

Example code for Weight Normalization, from "Weight Normalization: A Simple Reparameterization to Accelerate Training of Deep Neural Networks"

graphSAGE-pytorch

A PyTorch implementation of GraphSAGE. This package contains a PyTorch implementation of GraphSAGE.

rl_graph_generation

IPAM_Tutorial_2019

Notebooks for IPAM Tutorial, March 15 2019

bookish

A tool that translates augmented markdown into HTML or latex

genforce

An efficient PyTorch library for deep generative modeling.

mmcv

OpenMMLab Computer Vision Foundation

examples

A set of examples around pytorch in Vision, Text, Reinforcement Learning, etc.

pyGAT

Pytorch implementation of the Graph Attention Network model by Veličković et. al (2017, https://arxiv.org/abs/1710.10903)