totucuong

spectrum

A python library for data fusion

gradient_estimators

A collection of gradient estimator implementation

bayes_data_analysis

A collection of notebooks that demonstrate Bayesian data analysis

3DFI

The 3DFI pipeline predicts the 3D structure of proteins and searches for structural homology in the 3D space.

awesome-cto-resources

:bulb: A community-curated list of awesome resources to help you grow as a CTO

CbAS

Code for the ICML 2019 paper 'Conditioning by adaptive sampling for robust design'

cd4ml-workshop

Repository with sample code and instructions for "Continuous Intelligence" and "Continuous Delivery for Machine Learning: CD4ML" workshops

cime

cime public repository

FLEXS

Fitness landscape exploration sandbox for biological sequence design.

FSND

Public repository for the Full-Stack Nanodegree program.

genesis

Deep Exploration Networks - Diverse Deep Generative Models for DNA, RNA and Protein Sequences

ibm3202

Google Colab Tutorials for IBM3202

idiomatic-vimrc

Guidelines for sculpting your very own ~/.vimrc.

instagram-scraper

Scrapes an instagram user's photos and videos

mac

PyTorch implementation for "Training and Inference on Any-Order Autoregressive Models the Right Way", NeurIPS 2022 Oral, TPM 2023 Best Paper Honorable Mention

mc_gradients

MLDE

A machine-learning package for navigating combinatorial protein fitness landscapes.

OrgaQuant

Organoid Localization and Quantification Using Deep Convolutional Neural Networks

PECAN

Help file for running the scripts to learn and evaluate graph convolution networks for epitope and paratope prediction

PolyFold

An interactive visual simulator for distance-based protein folding

pyro

Deep universal probabilistic programming with Python and PyTorch

pyrosetta-basic

RoseTTAFold

This package contains deep learning models and related scripts for RoseTTAFold

seqprop

Stochastic Sequence Propagation - A Keras Model for optimizing DNA, RNA and protein sequences based on a predictor

topobuilder

Parametric Building of de novo Functional Topologies

totucuong.github.io

trDesign

trRosetta for protein design

trdesign-pytorch

pytorch implementation of trDesign

UniRep

UniRep model, usage, and examples.

UniRep-analysis

Analysis and figure code from Alley et al. 2019.