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 last month
• zhengkangjie / ESM-AA
  ☆77Updated 11 months ago
• ml4bio / RiboDiffusion
  ISMB-24/Bioinformatics: Tertiary Structure-based RNA Inverse Folding with Generative Diffusion Models
  ☆51Updated last year
• evo-design / protein-dpo
  Aligning protein generative models with experimental fitness
  ☆117Updated 3 months ago
• Eikor / InstructPLM
  The first large protein language model trained follows structure instructions.
  ☆93Updated 8 months ago
• OATML-Markslab / ProteinNPT
  Official code repository for the paper "ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers"
  ☆127Updated 2 months ago
• uci-cbcl / esm-efficient
  Efficient implementatin of ESM family.
  ☆80Updated 4 months ago
• THUNLP-MT / dyMEAN
  This repo contains the codes for our paper "End-to-End Full-Atom Antibody Design"
  ☆124Updated 11 months ago
• ZhonghuiGu / HEAL
  ☆58Updated last year
• ai4protein / ProSST
  🧬 Advanced hybrid language model for directed protein evolution. (NeurIPS 2024)
  ☆146Updated 8 months ago
• samsledje / ConPLex_dev
  ☆54Updated last year
• DeepGraphLearning / S3F
  Sequence-Structure-Surface Model for Protein Fitness Prediction (S3F)
  ☆47Updated last year
• ai4protein / ProtSSN
  🧬 Fusion of protein sequence and structural information, using denoising pre-training network for zero-shot protein engineering (eLife 2…
  ☆82Updated 8 months ago
• WillHua127 / ReactZyme
  Official repository of ReactZyme
  ☆39Updated last year
• varun-shanker / structural-evolution
  ☆121Updated last year
• TencentAILabHealthcare / PALM
  ☆55Updated 4 months ago
• YAndrewL / CLAPE
  contrastive learning and pre-trained encoder for protein-ligand binding sites prediction
  ☆36Updated 6 months ago
• hugohrban / ProGen2-finetuning
  Finetuning ProGen2 protein language model for generation of protein sequences from selected protein families.
  ☆86Updated 11 months ago
• TianZhuAI4S / DiffAffinity
  Predicting mutational effects on protein-protein binding via a side-chain diffusion probabilistic model (NeurIPS 2023 Poster)
  ☆37Updated 2 years ago
• WillHua127 / EnzymeFlow
  Official repository of EnzymeFlow
  ☆97Updated last year
• divnori / rnaflow
  RNAFlow: RNA Structure & Sequence Design via Inverse Folding-Based Flow Matching
  ☆80Updated last year
• melobio / EvoPlay
  ☆76Updated 2 years ago
• chao1224 / ProteinDT
  A Text-guided Protein Design Framework, Nat Mach Intell 2025 (https://www.nature.com/articles/s42256-025-01011-z)
  ☆101Updated last year
• bio-ontology-research-group / deepgo2
  ☆52Updated last year
• chandar-lab / AMPLIFY
  ☆120Updated 6 months ago
• dakpinaroglu / Frame2seq
  Structure-conditioned masked language modeling for protein sequence design
  ☆70Updated last year
• shuaizengMU / PEFT-SP
  ☆21Updated last year
• DeepGraphLearning / GearBind
  Pretrainable geometric graph neural network for antibody affinity maturation
  ☆70Updated 10 months ago
• TencentAI4S / HuDiff
  Code for humanization of antibody and nanobody
  ☆71Updated 5 months ago
• TencentAI4S / tfold
  open source code for Tencent tFold
  ☆140Updated 10 months ago