nitrogenase

Brewery

State-of-the-art ab initio prediction of 1D protein structure annotations

CCMgen

codemirror-textmate

CodeMirror now with Textmate grammars

coniii

Convenient Interface to Inverse Ising (ConIII)

Convolutional-Generative-Stochastic-Network-for-Protein-Secondary-Structure-Prediction

An implementation for Deep Supervised and Convolutional Generative Stochastic Network for Protein Secondary Structure Prediction, https://arxiv.org/abs/1403.1347

cu-ssp

Implementation of High Quality Protein Q8 Secondary Structure Prediction by Diverse Neural Network Architectures

DeepLocalProteinDocking

Placeholder for the publication code

effectivepython

Effective Python: Second Edition — Source Code and Errata for the Book

electro

Core code for the paper "A Generative Model For Electron Paths" (https://openreview.net/forum?id=r1x4BnCqKX).

EVcouplings

Evolutionary couplings from protein and RNA sequence alignments

getcontacts

Library for computing dynamic non-covalent contact networks in proteins throughout MD Simulation

GREMLIN_CPP

GREMLIN - learn MRF/potts model from input multiple sequence alignment! Implementation now available in C++ and Tensorflow/Python!

Machine-learning-for-proteins

Listing of papers about machine learning for proteins.

ML-From-Scratch

Machine Learning From Scratch. Bare bones NumPy implementations of machine learning models and algorithms with a focus on accessibility. Aims to cover everything from linear regression to deep learning.

mlss2019-bayesian-deep-learning

MLSS2019 Tutorial on Bayesian Active Learning

models

Models and examples built with TensorFlow

neural-processes

openprotein

A PyTorch framework for prediction of tertiary protein structure

panopto-downloader-chrome

Chrome extension to batch download videos from Panopto. Tested with the University of Cambridge Panopto website.

protein-sequence-embedding-iclr2019

Source code for "Learning protein sequence embeddings using information from structure" - ICLR 2019

protein-vae

Variational autoencoder for protein sequences - add metal binding sites and generate sequences for novel topologies

ProteinSecondaryStructure-CNN

Protein Secondary Structure predictor using Convolutional Neural Networks

pyGaussDCA

SingleFile

Web Extension for Firefox/Chrome/MS Edge and CLI tool to save a faithful copy of an entire web page in a single HTML file

TAPE

Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.

TensorFlow-Tutorials

TensorFlow Tutorials with YouTube Videos

UniRep

UniRep model, usage, and examples.

Zamboss

Ankidecks fuer 100 Tage Lernplan

zotero-manubot

Link Zotero to Manubot to quickly generate formatted bibliographies from your Zotero library

zotero-mas-metadata

A Zotero plugin that adds citation counts from Microsoft Academic to your references.