Alternatives and similar repositories for ptm-mamba:

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

• tyang816 / ProtSSN
  Fusion of protein sequence and structural information, using denoising pre-training network for zero-shot protein engineering (eLife 2024…
  ☆51Updated 3 weeks ago
• DeepGraphLearning / S3F
  Sequence-Structure-Surface Model for Protein Fitness Prediction (S3F)
  ☆23Updated last month
• uci-cbcl / esm-efficient
  Efficient implementatin of ESM family.
  ☆48Updated this week
• ml4bio / RiboDiffusion
  ISMB-24/Bioinformatics: Tertiary Structure-based RNA Inverse Folding with Generative Diffusion Models
  ☆35Updated 2 months ago
• DeepGraphLearning / GearBind
  Pretrainable geometric graph neural network for antibody affinity maturation
  ☆41Updated 5 months ago
• duolinwang / S-PLM
  S-PLM: Structure-aware Protein Language Model via Contrastive Learning between Sequence and Structure
  ☆50Updated 3 months ago
• WeiLab-Biology / DeepProSite
  ☆29Updated last year
• stebliankin / piston
  Evaluating Protein Binding Interfaces with Transformer Networks
  ☆40Updated last year
• pengzhangzhi / ab_opt
  Official implementation of Generative Diffusion Models for Antibody Design, Docking, and Optimization.
  ☆54Updated last year
• PeptoneLtd / proteinmpnn_ddg
  Novel estimator for the change in stability upon point mutation in monomeric and multimeric proteins.
  ☆40Updated last month
• KULL-Centre / _2023_Blaabjerg_SSEmb
  ☆32Updated 4 months ago
• kirjner / GGS
  This repository implements Gibbs sampling with Graph-based Smoothing
  ☆36Updated 8 months ago
• programmablebio / pepmlm
  Target Sequence-Conditioned Generation of Peptide Binders via Masked Language Modeling
  ☆45Updated 6 months ago
• Amelie-Schreiber / esm2_masked_lm
  Various Ideas for Protein Masked LM with ESMFold/ESM-2
  ☆14Updated last year
• BioinfoMachineLearning / ATOMRefine
  3D equivariant graph transformer for all-atom refinement of protein tertiary structures
  ☆25Updated last year
• TencentAI4S / HuDiff
  Code for humanization of antibody and nanobody
  ☆34Updated 2 months ago
• amelvim / antibody-diffusion-properties
  Guiding diffusion models for antibody sequence and structure co-design with developability properties.
  ☆30Updated 2 months ago
• LBM-EPFL / CARBonAra
  Deep learning framework for protein sequence design from a backbone scaffold that can leverage the molecular context including non-protei…
  ☆35Updated 2 months ago
• shuaizengMU / PEFT-SP
  ☆15Updated 3 months ago
• smiles724 / GNN-Bottleneck
  ☆39Updated 2 years ago
• ChakradharG / PeptideBERT
  Transformer Based Language Model for Peptide Property Prediction
  ☆38Updated 5 months ago
• DeepRank / deeprank2
  An open-source deep learning framework for data mining of protein-protein interfaces or single-residue variants.
  ☆43Updated last month
• pgmikhael / clipzyme
  Reaction-Conditioned Virtual Screening of Enzymes
  ☆25Updated 2 months ago
• DeepGraphLearning / esm-s
  Structure-Informed Protein Language Model
  ☆27Updated 11 months ago
• liuyf020419 / SCUBA-D
  ☆52Updated 9 months ago
• LDeng0205 / confidence-bootstrapping
  Implementation of the Confidence Bootstrapping procedure for protein-ligand docking.
  ☆26Updated 11 months ago
• decodermu / GPD
  Graphormer Based Protein Sequence Design
  ☆24Updated 11 months ago
• leeyang / DRfold
  ☆33Updated last year
• petergroth / FLOP
  This is the official code repository for the paper FLOP: Tasks for Fitness Landscapes Of Protein wildtypes by Groth et al.
  ☆21Updated last year
• anton-bushuiev / PPIformer
  Learning to design protein-protein interactions with enhanced generalization (ICLR 2024)
  ☆47Updated 2 weeks ago