17 results found Sort:

westlake-repl
SaProt westlake-repl
39
389
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
169 commits to main branch, last one about a month ago
zaixizhang
PocketGen zaixizhang
15
162
mit
2
PocketGen (Nature Machine Intelligence 24): Generating Full-Atom Ligand-Binding Protein Pockets
generative protein-structure protein-language-model geometric-deep-learning protein-ligand-interactions
Created 2023-11-08
102 commits to main branch, last one 22 days ago
THUDM
ProteinLM THUDM
21
115
apache-2.0
11
Protein Language Model
deep-learning pretrained-models transfer-learning protein-language-model
Created 2021-04-23
53 commits to main branch, last one 2 years ago
pengzhangzhi
faplm pengzhangzhi
8
108
mit
4
FAPLM: A Drop-in Efficient Pytorch Implementation of Protein Language Models
pytorch protein-sequences protein-language-model
Created 2024-11-29
31 commits to main branch, last one about a month ago
ISYSLAB-HUST
ProtFlash ISYSLAB-HUST
3
103
mit
2
ProtFlash: A lightweight protein language model
bioinformatics protein-sequence pretrained-models protein-embeddings protein-language-model protein-representation-learning
Created 2022-09-22
17 commits to main branch, last one 11 months ago
ml4bio
Dense-Homolog-Retrieval ml4bio
5
99
bsd-3-clause
4
Nature Biotechnology: Ultra-fast, sensitive detection of protein remote homologs using deep dense retrieval
protein alphafold dense-retrieval homology-search msa-construction protein-language-model protein-structure-prediction
Created 2022-10-16
15 commits to main branch, last one 5 months ago
westlake-repl
SaprotHub westlake-repl
8
90
mit
3
SaprotHub: Making Protein Modeling Accessible to All Biologists
nlp saprot saprothub protein-design protein-fitness universal-model foundation-models protein-structure protein-language-model protein-function-prediction protein-protein-interaction
Created 2024-05-02
533 commits to main branch, last one a day ago
NREL
EvoProtGrad NREL
8
80
bsd-3-clause
8
Directed evolution of proteins in sequence space with gradients
mcmc huggingface directed-evolution protein-engineering protein-language-model
Created 2023-06-12
43 commits to main branch, last one 6 months ago
westlake-repl
ProTrek westlake-repl
8
76
mit
2
ProTrek: Navigating the Protein Universe through Tri-Modal Contrastive Learning
mmseqs2 foldseek protein-alignment protein-annotation protein-prediction sequence-structure protein-pretraining contrastive-learning protein-language-model
Created 2024-05-21
114 commits to main branch, last one about a month ago
elttaes
Revisiting-PLMs elttaes
10
61
mit
1
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 4 months ago
OpenProteinAI
PoET OpenProteinAI
3
57
mit
3
Inference code for PoET: A generative model of protein families as sequences-of-sequences
proteins deep-learning generative-model protein-sequences protein-engineering protein-language-model
Created 2023-10-28
8 commits to main branch, last one 9 months ago
labstructbioinf
pLM-BLAST labstructbioinf
5
47
mit
4
Detection of remote homology by comparison of protein language model representations
bioinformatics computional-biology protein-language-model protein-sequence-embeddings
Created 2022-09-27
443 commits to main branch, last one 4 months ago
oxpig
CaLM oxpig
11
42
bsd-3-clause
1
Protein language model trained on coding DNA
dna llms codons deep-learning language-models machine-learning computational-biology protein-language-model
Created 2023-01-12
8 commits to main branch, last one 3 months ago
PaccMann
paccmann_proteomics PaccMann
8
41
mit
8
PaccMann models for protein language modeling
pytorch transformer protein-language-model
Created 2020-11-02
13 commits to master branch, last one 3 years ago
mims-harvard
SPECTRA mims-harvard
7
37
mit
4
SPECTRA: Spectral framework for evaluation of biomedical AI models
benchmarking foundation-models protein-sequences protein-structure benchmark-framework large-language-models protein-language-model geometric-deep-learning
Created 2023-12-28
60 commits to main branch, last one about a month ago
HySonLab
LatentDE HySonLab
0
25
unknown
1
Latent-based Directed Evolution guided by Gradient Ascent for Protein Design
gradient-ascent directed-evolution protein-optimization evolutionary-algorithm protein-language-model variational-autoencoder
Created 2023-12-06
8 commits to main branch, last one 9 months ago
THUDM
MSAGPT THUDM
2
25
apache-2.0
7
MSAGPT
protein-language-model
Created 2024-06-07
9 commits to main branch, last one 2 months ago