Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2
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Dec 16, 2025 - Python
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alphafold2
Here are 121 public repositories matching this topic...
User friendly and accurate binder design pipeline
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Sep 21, 2026 - Jupyter Notebook
๐งฌ gget enables efficient querying of genomic reference databases
rna-seq genomics reference databases ensembl proteomics blast transcriptomics uniprot ncbi enrichment-analysis enrichr cellxgene alphafold gget archs4 alphafold2
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Oct 19, 2026 - 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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Mar 8, 2026 - Python
Optimizing AlphaFold Training and Inference on GPU Clusters
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Jul 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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Oct 12, 2026 - Vue
Protein 3D structure prediction pipeline
workflow pipeline nextflow protein-structure protein-sequences protein-folding protein-fold-prediction nf-core alphafold2 colabfold esmfold
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Oct 16, 2026 - HTML
Automated, modular pipeline for de novo protein binder design on SLURM clusters, with the BFmonitor dashboard
deep-learning structural-biology slurm protein-design pyrosetta alphafold2 de-novo-protein-design rfdiffusion proteinmpnn protein-binders cnio
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Sep 23, 2026 - Python
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
Modelling protein conformational landscape with Alphafold
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Oct 1, 2026 - Jupyter Notebook
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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Apr 13, 2026 - 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
[๐ง๐๐ญ๐ฎ๐ซ๐ ๐ฆ๐๐๐ก๐ข๐ง๐ ๐ข๐ง๐ญ๐๐ฅ๐ฅ๐ข๐ ๐๐ง๐๐] ImmunoStruct enables multimodal deep learning for immunogenicity prediction
deep-learning computational-biology prediction immunology infectious-diseases multimodal-learning multimodal multimodal-deep-learning self-supervised-learning immunogenicity alphafold contrastive-learning nature-machine-intelligence immunogenicity-prediction cancer-immunology alphafold2 ai4science ai-for-science multimodal-ai ai-for-biology
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Oct 5, 2026 - Python
Run AlphaFold2 (and multimer) step by step
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Apr 23, 2022 - Python
Cryptic pocket prediction using AlphaFold 2
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Nov 27, 2022 - Jupyter Notebook
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