Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2
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Dec 4, 2024 - Python
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alphafold2
Here are 73 public repositories matching this topic...
Optimizing AlphaFold Training and Inference on GPU Clusters
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Jul 16, 2024 - Python
Saprot: Protein Language Model with Structural Alphabet (AA+3Di)
protein-structure protein representation-learning protein-sequence predicted-structures pretraining structure-aware protein-language-model alphafold2 foldseek structural-alphbet protein-llm
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Dec 24, 2024 - Python
User friendly and accurate binder design pipeline
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Dec 16, 2024 - Python
Trainable PyTorch framework for developing protein, RNA and complex models.
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Nov 13, 2024 - Python
Predicting direct protein-protein interactions with AlphaFold deep learning neural network models.
bioinformatics deep-learning protein-protein-interaction protein-structure-prediction protein-protein-docking protein-complexes alphafold2
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Sep 8, 2024 - Python
Modified version of Alphafold to divide CPU part (MSA and template searching) and GPU part. This can accelerate Alphafold when predicting multiple structures
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Feb 25, 2024 - Python
PyMOL extension to color AlphaFold structures by confidence (pLDDT).
bioinformatics structural-biology pymol-plugin protein-structure computational-biology pymol alphafold alphafold2
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Jul 23, 2024 - Python
MMseqs2 app to run on your workstation or servers
electron docker golang bioinformatics vue docker-compose profile-search sequence-search mmseqs alphafold2 colabfold foldseek structure-search
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Dec 2, 2024 - Vue
Protein 3D structure prediction pipeline
workflow pipeline nextflow protein-structure protein-sequences protein-folding protein-fold-prediction nf-core alphafold2
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Dec 20, 2024 - Nextflow
Exploring Evolution-aware & free protein language models as protein function predictors
benchmark pytorch contact-prediction stability multiple-sequence-alignment protein-annotation function-prediction protein-classification alphafold protein-language-model alphafold2 fitness-prediction zero-shot-prediction msa-construction msa-transformer esm1b remote-homology-detection metal-ion-binding
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Sep 28, 2024 - Python
FrameDiPT: an SE(3) diffusion model for protein structure inpainting
protein-structure generative-model tcr inpainting protein-folding diffusion-models alphafold2 loop-design
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Jan 22, 2024 - Jupyter Notebook
Local Interaction Score (LIS) Calculation from AlphaFold-Multimer (Enhanced Protein-Protein Interaction Discovery via AlphaFold-Multimer)
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Aug 29, 2024 - Jupyter Notebook
A curated list of awesome self-learning materials in Computational Structural Biology, such as sources, tutorials, etc.
awesome bioinformatics deep-neural-networks deep-learning computational-biology awesome-list alphafold2
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Sep 6, 2022
Run AlphaFold2 (and multimer) step by step
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Apr 23, 2022 - Python
Infrastructure template and Jupyter notebooks for running RoseTTAFold on AWS Batch.
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Feb 24, 2022 - Python
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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Jun 3, 2023 - Python
Cryptic pocket prediction using AlphaFold 2
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Nov 27, 2022 - Jupyter Notebook
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