16 results found Sort:

aqlaboratory
openfold aqlaboratory
553
2.8k
apache-2.0
50
Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2
pytorch alphafold2 protein-structure
Created 2021-09-14
1,474 commits to main branch, last one 26 days ago
pachterlab
gget pachterlab
75
960
bsd-2-clause
10
🧬 gget enables efficient querying of genomic reference databases
gget ncbi blast archs4 enrichr ensembl uniprot alphafold databases reference alphafold2 enrichment-analysis
Created 2022-05-04
2,787 commits to main branch, last one 8 days ago
hpcaitech
FastFold hpcaitech
86
576
apache-2.0
17
Optimizing AlphaFold Training and Inference on GPU Clusters
gpu cuda pytorch evoformer alphafold2 parallelism habana-gaudi protein-folding protein-structure
Created 2022-02-27
103 commits to main branch, last one about a year ago
westlake-repl
SaProt westlake-repl
37
373
mit
6
Saprot: Protein Language Model with Structural Alphabet (AA+3Di)
protein foldseek alphafold2 pretraining protein-llm structure-aware protein-sequence protein-structure structural-alphbet predicted-structures protein-language-model representation-learning
Created 2023-10-02
166 commits to main branch, last one 6 days ago
martinpacesa
BindCraft martinpacesa
70
364
mit
9
User friendly and accurate binder design pipeline
binder design protein pyrosetta alphafold2
Created 2024-09-18
58 commits to main branch, last one 14 days ago
baaihealth
OpenComplex baaihealth
33
266
apache-2.0
17
Trainable PyTorch framework for developing protein, RNA and complex models.
pytorch alphafold2 rna-structure protein-structure
Created 2023-01-03
24 commits to master branch, last one about a month ago
dptech-corp
Uni-Fold-jax dptech-corp
46
159
apache-2.0
8
Trainable AlphaFold implementation in JAX
jax alphafold2 deep-learning
Created 2021-12-07
22 commits to main branch, last one 2 years ago
FreshAirTonight
af2complex FreshAirTonight
19
154
unknown
7
Predicting direct protein-protein interactions with AlphaFold deep learning neural network models.
alphafold2 deep-learning bioinformatics protein-complexes protein-protein-docking protein-protein-interaction protein-structure-prediction
Created 2021-11-07
119 commits to main branch, last one 3 months ago
Zuricho
ParallelFold Zuricho
46
152
unknown
11
Modified version of Alphafold to divide CPU part (MSA and template searching) and GPU part. This can accelerate Alphafold when predicting multiple structures
parafold alphafold alphafold2 parallelization
Created 2021-08-02
67 commits to main branch, last one 10 months ago
cbalbin-bio
pymol-color-alphafold cbalbin-bio
22
76
mit
2
PyMOL extension to color AlphaFold structures by confidence (pLDDT).
pymol alphafold alphafold2 pymol-plugin bioinformatics protein-structure structural-biology computational-biology
Created 2021-11-16
7 commits to master branch, last one 2 years ago
soedinglab
MMseqs2-App soedinglab
20
67
gpl-3.0
7
MMseqs2 app to run on your workstation or servers
vue docker golang mmseqs electron foldseek colabfold alphafold2 bioinformatics docker-compose profile-search sequence-search structure-search
Created 2018-04-19
1,027 commits to master branch, last one 3 days ago
nf-core
proteinfold nf-core
43
64
mit
163
Protein 3D structure prediction pipeline
nf-core nextflow pipeline workflow alphafold2 protein-folding protein-sequences protein-structure protein-fold-prediction
Created 2022-03-03
767 commits to master branch, last one 5 months ago
elttaes
Revisiting-PLMs elttaes
10
61
mit
2
Exploring Evolution-aware & free protein language models as protein function predictors
esm1b pytorch alphafold benchmark stability alphafold2 msa-transformer msa-construction metal-ion-binding contact-prediction fitness-prediction protein-annotation function-prediction zero-shot-prediction protein-classification protein-language-model remote-homology-detection multiple-sequence-alignment
Created 2022-10-06
33 commits to main branch, last one 3 months ago
instadeepai
FrameDiPT instadeepai
6
52
other
5
FrameDiPT: an SE(3) diffusion model for protein structure inpainting
tcr alphafold2 inpainting loop-design protein-folding diffusion-models generative-model protein-structure
Created 2023-11-24
4 commits to main branch, last one 11 months ago
flyark
AFM-LIS flyark
6
47
mit
4
Local Interaction Score (LIS) Calculation from AlphaFold-Multimer (Enhanced Protein-Protein Interaction Discovery via AlphaFold-Multimer)
colabfold alphafold2 alphafold3 alphafold-multimer protein-protein-interaction-prediction
Created 2024-02-09
84 commits to main branch, last one 4 months ago
pengzhangzhi
Awesome-Computational-Structural-Biology pengzhangzhi
0
40
unknown
2
A curated list of awesome self-learning materials in Computational Structural Biology, such as sources, tutorials, etc.
awesome alphafold2 awesome-list deep-learning bioinformatics deep-neural-networks computational-biology
Created 2022-07-04
5 commits to main branch, last one 2 years ago