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bayesian-neural-network-blogpost

Building a Bayesian deep learning classifier

bbcontacts

Prediction of beta-strand pairing from direct coupling patterns

binf-scripts

A collection of useful bioinformatics scripts.

brewery

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

ccmgen

ccmpredpy_master

Python implementation of the CCMpred predictor of residue-residue contacts.

codemirror-textmate

CodeMirror now with Textmate grammars

concretedropout

Code for Concrete Dropout as presented in https://arxiv.org/abs/1705.07832

coniii

Convenient Interface to Inverse Ising (ConIII)

contact-vis

Python package for simple protein residue-residue contact map plotting.

contact_prediction

collection of general scripts

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

dropoutuncertaintyexps

Experiments used in "Dropout as a Bayesian Approximation: Representing Model Uncertainty in Deep Learning"

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

example-project

Example Python DS project

gaussdca

Python implementation of GaussDCA using Cython.

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!

how-to-grow-neat-software-architecture-out-of-jupyter-notebooks

Growing the code out of your notebooks - the right way.

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

nn_calibration

Calibration of Convolutional Neural Networks

notes-on-python-tricks-the-book

Notes I took while reading 'Python Tricks: The Book. A Buffet of Awesome Python Features'