Alternatives and similar repositories for ptm-mamba

Users that are interested in ptm-mamba are comparing it to the libraries listed below

• duolinwang / S-PLM
  S-PLM: Structure-aware Protein Language Model via Contrastive Learning between Sequence and Structure
  ☆74Updated 2 weeks ago
• ml4bio / RiboDiffusion
  ISMB-24/Bioinformatics: Tertiary Structure-based RNA Inverse Folding with Generative Diffusion Models
  ☆51Updated last year
• uci-cbcl / esm-efficient
  Efficient implementatin of ESM family.
  ☆78Updated 4 months ago
• moritzgls / ESM-Effect
  ☆16Updated 10 months ago
• zhengkangjie / ESM-AA
  ☆77Updated 11 months ago
• varun-shanker / structural-evolution
  ☆120Updated last year
• evo-design / protein-dpo
  Aligning protein generative models with experimental fitness
  ☆115Updated 2 months ago
• OATML-Markslab / ProteinNPT
  Official code repository for the paper "ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers"
  ☆126Updated last month
• shuaizengMU / PEFT-SP
  ☆21Updated last year
• hugohrban / ProGen2-finetuning
  Finetuning ProGen2 protein language model for generation of protein sequences from selected protein families.
  ☆85Updated 11 months ago
• ai4protein / ProSST
  🧬 Advanced hybrid language model for directed protein evolution. (NeurIPS 2024)
  ☆143Updated 7 months ago
• rmrao / msa-transformer
  MSA Transformer reproduction code
  ☆88Updated 4 years ago
• OpenProteinAI / PoET
  Inference code for PoET: A generative model of protein families as sequences-of-sequences
  ☆88Updated last year
• ZhonghuiGu / HEAL
  ☆58Updated last year
• TencentAI4S / tfold
  open source code for Tencent tFold
  ☆137Updated 9 months ago
• melobio / EvoPlay
  ☆76Updated 2 years ago
• DeepGraphLearning / GearBind
  Pretrainable geometric graph neural network for antibody affinity maturation
  ☆70Updated 9 months ago
• pylelab / rMSA
  RNA Multiple Sequence Alignment
  ☆47Updated 2 years ago
• wenjiegroup / ProMEP
  Zero-shot prediction of mutation effects on protein function with multimodal deep representation learning
  ☆68Updated 4 months ago
• TencentAILabHealthcare / PALM
  ☆54Updated 3 months ago
• Eikor / InstructPLM
  The first large protein language model trained follows structure instructions.
  ☆91Updated 7 months ago
• ai4protein / ProtSSN
  🧬 Fusion of protein sequence and structural information, using denoising pre-training network for zero-shot protein engineering (eLife 2…
  ☆80Updated 7 months ago
• anton-bushuiev / PPIRef
  Dataset and package for working with protein-protein interactions in 3D
  ☆99Updated 8 months ago
• Graylab / IgLM
  Generative Language Modeling for Antibody Design
  ☆177Updated last year
• chao1224 / ProteinDT
  A Text-guided Protein Design Framework, Nat Mach Intell 2025 (https://www.nature.com/articles/s42256-025-01011-z)
  ☆99Updated last year
• WillHua127 / EnzymeFlow
  Official repository of EnzymeFlow
  ☆97Updated last year
• divnori / rnaflow
  RNAFlow: RNA Structure & Sequence Design via Inverse Folding-Based Flow Matching
  ☆78Updated last year
• EDAPINENUT / GeoAB
  This is the official repository of paper - GeoAB: Towards Realistic Antibody Design and Reliable Affinity Maturation (ICML2024)
  ☆42Updated last year
• programmablebio / pepmlm
  Target Sequence-Conditioned Generation of Peptide Binders via Masked Language Modeling
  ☆108Updated 2 months ago
• THUNLP-MT / dyMEAN
  This repo contains the codes for our paper "End-to-End Full-Atom Antibody Design"
  ☆124Updated 10 months ago