Alternatives and similar repositories for Revisiting-PLMs:

Users that are interested in Revisiting-PLMs are comparing it to the libraries listed below

• chao1224 / ProteinDT
  A Text-guided Protein Design Framework, Nat Mach Intell 2025 (https://www.nature.com/articles/s42256-025-01011-z)
  ☆76Updated 3 months ago
• dqwang122 / EATLM
  Code for 'On Pre-trained Language Models For Antibody'
  ☆33Updated 2 years ago
• THUDM / MSAGPT
  MSAGPT
  ☆31Updated 5 months ago
• bozhenhhu / A-Review-of-pLMs-and-Methods-for-Protein-Structure-Prediction
  ☆41Updated 2 years ago
• Eikor / InstructPLM
  The first large protein language model trained follows structure instructions.
  ☆79Updated 11 months ago
• luost26 / RDE-PPI
  Rotamer Density Estimator is an Unsupervised Learner of the Effect of Mutations on Protein-Protein Interaction (ICLR 2023)
  ☆57Updated 10 months ago
• DeepGraphLearning / PEER_Benchmark
  PEER Benchmark, appear at NeurIPS 2022 Dataset and Benchmark Track (https://arxiv.org/abs/2206.02096)
  ☆89Updated 2 years ago
• TencentAI4S / IgGM
  [ICLR2025] Official Implementation of IgGM: A Generative Model for Functional Antibody and Nanobody Design
  ☆68Updated 2 weeks ago
• ginnm / ProteinPretraining
  Source code of PETA: Evaluating the Impact of Protein Transfer Learning with Sub-word Tokenization on Downstream Applications.
  ☆32Updated 4 months ago
• shichence / ProtSeed
  Source code of the paper "Protein Sequence and Structure Co-Design with Equivariant Translation"
  ☆24Updated last year
• instadeepai / protein-structure-tokenizer
  Official implementation of "Learning the language of protein structures"
  ☆30Updated 4 months ago
• KyGao / ABGNN
  PyTorch code for KDD 2023 paper "Pre-training Antibody Language Models for Antigen-Specific Computational Antibody Design"
  ☆51Updated last year
• OATML-Markslab / ProteinNPT
  Official code repository for the paper "ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers"
  ☆113Updated last month
• THUNLP-MT / dyMEAN
  This repo contains the codes for our paper "End-to-End Full-Atom Antibody Design"
  ☆104Updated 2 months ago
• Immortals-33 / Scaffold-Lab
  A comprehensive benchmark on the performances of multiple protein backbone generative models.
  ☆55Updated 2 weeks ago
• lucidrains / ddpm-ipa-protein-generation
  Implementation of the DDPM + IPA (invariant point attention) for protein generation, as outlined in the paper "Protein Structure and Sequ…
  ☆89Updated 2 years ago
• DeepGraphLearning / SiamDiff
  Code for Pre-training Protein Encoder via Siamese Sequence-Structure Diffusion Trajectory Prediction (https://arxiv.org/abs/2301.12068)
  ☆40Updated last year
• HeliXonProtein / binding-ddg-predictor
  open source repository
  ☆137Updated last year
• THUNLP-MT / MEAN
  This repo contains the codes for our paper Conditional Antibody Design as 3D Equivariant Graph Translation.
  ☆93Updated 2 years ago
• Profluent-Internships / MMDiff
  Joint Sequence-Structure Generation of Nucleic Acid and Protein Complexes with SE(3)-Discrete Diffusion
  ☆58Updated last year
• melobio / EvoPlay
  ☆73Updated last year
• BioinfoMachineLearning / DIPS-Plus
  The Enhanced Database of Interacting Protein Structures for Interface Prediction
  ☆48Updated last year
• rmrao / msa-transformer
  MSA Transformer reproduction code
  ☆80Updated 3 years ago
• zhengkangjie / ESM-AA
  ☆69Updated 2 months ago
• timkucera / proteogan
  Protein generative model conditioned on Gene Ontology terms
  ☆35Updated 2 years ago
• wengong-jin / RefineGNN
  ☆130Updated 2 years ago
• J-SNACKKB / FLIP
  A collection of tasks to probe the effectiveness of protein sequence representations in modeling aspects of protein design
  ☆98Updated 7 months ago
• pengzhangzhi / protein-sequence-diffusion-model
  diffusion model for protein sequence generation
  ☆49Updated 2 years ago
• GeomMolDesign / HMR
  Code for "Learning Harmonic Molecular Representations on Riemannian Manifold", ICLR, 2023
  ☆10Updated 2 years ago
• zaixizhang / FAIR
  NeurIPS 2023 Spotlight paper: Full atom protein pocket design via iterative refinement
  ☆48Updated last year