8 Repositories
Python alphafold2 Libraries
Implementation of the GVP-Transformer, which was used in the paper "Learning inverse folding from millions of predicted structures" for de novo protein design alongside Alphafold2
GVP Transformer (wip) Implementation of the GVP-Transformer, which was used in the paper Learning inverse folding from millions of predicted structure
19 May 6, 2022
Running AlphaFold2 (from ColabFold) in Azure Machine Learning
Running AlphaFold2 (from ColabFold) in Azure Machine Learning Colby T. Ford, Ph.D. Companion repository for Medium Post: How to predict many protein s
3 Feb 18, 2022
Infrastructure template and Jupyter notebooks for running RoseTTAFold on AWS Batch.
AWS RoseTTAFold Infrastructure template and Jupyter notebooks for running RoseTTAFold on AWS Batch. Overview Proteins are large biomolecules that play
20 May 10, 2022
A tool to visualise the results of AlphaFold2 and inspect the quality of structural predictions
AlphaFold Analyser This program produces high quality visualisations of predicted structures produced by AlphaFold. These visualisations allow the use
3 Nov 13, 2022
A modified version of DeepMind's Alphafold2 to divide CPU part (MSA and template searching) and GPU part (prediction model)
ParallelFold Author: Bozitao Zhong This is a modified version of DeepMind's Alphafold2 to divide CPU part (MSA and template searching) and GPU part (p
77 Dec 22, 2022
Implementation of the Triangle Multiplicative module, used in Alphafold2 as an efficient way to mix rows or columns of a 2d feature map, as a standalone package for Pytorch
Triangle Multiplicative Module - Pytorch Implementation of the Triangle Multiplicative module, used in Alphafold2 as an efficient way to mix rows or c
22 Oct 28, 2022
Implementation of Invariant Point Attention, used for coordinate refinement in the structure module of Alphafold2, as a standalone Pytorch module
Invariant Point Attention - Pytorch Implementation of Invariant Point Attention as a standalone module, which was used in the structure module of Alph
113 Jan 5, 2023
Implementation of Graph Transformer in Pytorch, for potential use in replicating Alphafold2
Graph Transformer - Pytorch Implementation of Graph Transformer in Pytorch, for potential use in replicating Alphafold2. This was recently used by bot
97 Dec 28, 2022