Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2
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Updated
May 23, 2024 - Python
Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2
Optimizing AlphaFold Training and Inference on GPU Clusters
Modified version of Alphafold to divide CPU part (MSA and template searching) and GPU part. This can accelerate Alphafold when predicting multiple structures
Trainable PyTorch framework for developing protein, RNA and complex models.
Protein 3D structure prediction pipeline
PyMOL extension to color AlphaFold structures by confidence (pLDDT).
Saprot: Protein Language Model with Structural Alphabet
Predicting direct protein-protein interactions with AlphaFold deep learning neural network models.
MMseqs2 app to run on your workstation or servers
Exploring Evolution-aware & free protein language models as protein function predictors
Run AlphaFold2 (and multimer) step by step
Local Interaction Score (LIS) Calculation from AlphaFold-Multimer (Enhanced Protein-Protein Interaction Discovery via AlphaFold-Multimer)
A tool to visualise the results of AlphaFold2 and inspect the quality of structural predictions
AlphaFold2 and RoseTTAFold predictions of the SARS-CoV-2 B.1.1.529 variant Spike protein with HADDOCK antibody interactions
FrameDiPT: an SE(3) diffusion model for protein structure inpainting
AlphaMod's official repository for protein folding
Infrastructure template and Jupyter notebooks for running RoseTTAFold on AWS Batch.
A tool for predicting the effects of missense mutations on protein stability changes upon missense mutation using protein sequence only. PROST uses colab AlhpaFold2 for the prediction of pdb struture from FASTA sequence.
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