Alternatives and similar repositories for protein-bert-pytorch:

Users that are interested in protein-bert-pytorch are comparing it to the libraries listed below

• tbepler / prose
  Multi-task and masked language model-based protein sequence embedding models.
  ☆99Updated 3 years ago
• wengong-jin / RefineGNN
  ☆126Updated 2 years ago
• sacdallago / bio_embeddings
  Get protein embeddings from protein sequences
  ☆475Updated last year
• OATML-Markslab / Tranception
  Official repository for the paper "Tranception: Protein Fitness Prediction with Autoregressive Transformers and Inference-time Retrieval"
  ☆146Updated last year
• luost26 / diffab
  ✌🏻 Antigen-Specific Antibody Design and Optimization with Diffusion-Based Generative Models for Protein Structures (NeurIPS 2022)
  ☆303Updated last year
• flatironinstitute / DeepFRI
  Deep functional residue identification
  ☆312Updated last year
• microsoft / protein-sequence-models
  ☆236Updated 6 months ago
• rmrao / msa-transformer
  MSA Transformer reproduction code
  ☆72Updated 3 years ago
• oxpig / AbLang
  AbLang: A language model for antibodies
  ☆134Updated last year
• nadavbra / protein_bert
  ☆519Updated last year
• zjunlp / OntoProtein
  [ICLR 2022] OntoProtein: Protein Pretraining With Gene Ontology Embedding
  ☆146Updated last year
• lucidrains / chroma-pytorch
  Implementation of Chroma, generative models of protein using DDPM and GNNs, in Pytorch
  ☆159Updated 2 years ago
• Graylab / IgLM
  Generative Language Modeling for Antibody Design
  ☆135Updated 4 months ago
• brianhie / efficient-evolution
  Efficient evolution from protein language models
  ☆186Updated last year
• J-SNACKKB / FLIP
  A collection of tasks to probe the effectiveness of protein sequence representations in modeling aspects of protein design
  ☆96Updated 4 months ago
• a-r-j / ProteinWorkshop
  Benchmarking framework for protein representation learning. Includes a large number of pre-training and downstream task datasets, models …
  ☆220Updated 9 months ago
• mheinzinger / SeqVec
  Modelling the Language of Life - Deep Learning Protein Sequences
  ☆72Updated 4 years ago
• ml4bio / e2efold
  pytorch implementation for "RNA Secondary Structure Prediction By Learning Unrolled Algorithms"
  ☆110Updated 10 months ago
• muhaochen / seq_ppi
  This is the repository for PIPR. This repository contains the source code and links to some datasets used in the ISMB/ECCB-2019 paper "Mu…
  ☆93Updated 2 years ago
• OATML-Markslab / ProteinGym
  Official repository for the ProteinGym benchmarks
  ☆269Updated 3 months ago
• Biomatter-Designs / ProteinGAN
  ☆193Updated 3 years ago
• lucidrains / progen
  Implementation and replication of ProGen, Language Modeling for Protein Generation, in Jax
  ☆110Updated 3 years ago
• jertubiana / ScanNet
  ☆119Updated last year
• MachineLearningLifeScience / meaningful-protein-representations
  ☆108Updated 2 years ago
• jonathanking / protein-transformer
  Predicting protein structure through sequence modeling
  ☆111Updated 4 years ago
• BorgwardtLab / proteinshake
  Protein structure datasets for machine learning.
  ☆105Updated 7 months ago
• fhalab / MLDE
  A machine-learning package for navigating combinatorial protein fitness landscapes.
  ☆122Updated 3 years ago
• DeepGraphLearning / GearNet
  GearNet and Geometric Pretraining Methods for Protein Structure Representation Learning, ICLR'2023 (https://arxiv.org/abs/2203.06125)
  ☆281Updated last year
• RosettaCommons / RFDesign
  Protein hallucination and inpainting with RoseTTAFold
  ☆250Updated last year
• HeliXonProtein / binding-ddg-predictor
  open source repository
  ☆134Updated last year