whbpt

whbpt's Stars

• sokrypton/ColabDesign

  Making Protein Design accessible to all via Google Colab!

  Language:Python710161

• ShintaroMinami/GCNdesign

  Neural network model for prediction of amino-acid sequence from a protein backbone structure

  Language:Python245

• sokrypton/GREMLIN_LH

  Language:Jupyter Notebook43

• spetti/SMURF

  Language:Python13113

• sokrypton/ColabFold

  Making Protein folding accessible to all!

  Language:Jupyter Notebook2.2k536

• Gsunshine/Enjoy-Hamburger

  [ICLR 2021 top 3%] Is Attention Better Than Matrix Decomposition?

  Language:Python33121

• facebookresearch/esm

  Evolutionary Scale Modeling (esm): Pretrained language models for proteins

  Language:Python3.6k681

• lupoglaz/OpenFold2

  Attempt at reproduction of AlphaFold2

  Language:Python9114

• songlab-cal/factored-attention

  This repository contains code for reproducing results in our paper Interpreting Potts and Transformer Protein Models Through the Lens of Simplified Attention

  Language:Jupyter Notebook589

• guyujun/pyrosetta-basic

  Language:Jupyter Notebook15839

• Kortemme-Lab/match_ligand_binding_sites

  Extract ligand binding sites from PDB. Match the binding sites to de novo scaffolds.

  Language:Python115

• sokrypton/e2e

  3

• jimmyxu/chnroutes

  Forked from https://chnroutes.googlecode.com/

  Language:Python956214

• matteofigliuzzi/bmDCA

  Language:C183

• whbpt/coursera

  Language:Python2

• SamuelStentz/Protease-Substrate-Design

  Language:Python1

• RosettaCommons/PyRosetta.notebooks

  Jupyter Notebooks for learning the PyRosetta platform for biomolecular structure prediction and design

  Language:Jupyter Notebook557159

• sokrypton/seqmodels

  Language:Jupyter Notebook304

• churchmanlab/FIDDLE

  functional genomic data integration

  Language:Jupyter Notebook102

• sokrypton/tf_proteins

  some tools for working with protein (PDB) files in tensorflow

  Language:Jupyter Notebook112

• whbpt/GREMLIN_PYTORCH

  a pytorch version for GREMLIN, used to predict the protein contacts by coevolution method.

  Language:Jupyter Notebook152

• google-deepmind/graph_nets

  Build Graph Nets in Tensorflow

  Language:Python5.4k784

• dauparas/tensorflow_examples

  A collection of simple Tensorflow examples on Google Colab.

  Language:Jupyter Notebook83

• sokrypton/GREMLIN_CPP

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

  Language:Jupyter Notebook5326

• whbpt/mfDCA

  reimplementation of mfDCA in python

  Language:Jupyter Notebook103

• dzarmola/dca-mol

  Plugin for PyMOL which allows user to easily visualize output from DCA calculations on a 3D structure

  Language:D52

• BrooksResearchGroup-UM/DirectCouplingAnalysis_PottsModel_Tensorflow

  A Tensorflow implementation of Direct Coupling Analysis using Potts model

  Language:Python102

• EderSantana/gumbel

  Gumbel-Softmax Variational Autoencoder with Keras

  Language:Jupyter Notebook13226

• debbiemarkslab/plmc

  Inference of couplings in proteins and RNAs from sequence variation

  Language:C10836

• aqlaboratory/proteinnet

  Standardized data set for machine learning of protein structure

  Language:Python887131