Alternatives and similar repositories for tmol

Users that are interested in tmol are comparing it to the libraries listed below

• Graylab / DFMDock
  DFMDock (Denoising Force Matching Dock), a diffusion model that unifies sampling and ranking within a single framework.
  ☆47Updated last month
• Kuhlman-Lab / PIPPack
  Implementation of Protein Invariant Point Packer (PIPPack)
  ☆32Updated last year
• iambic-therapeutics / np-bench
  A benchmark for 3D biomolecular structure prediction models
  ☆59Updated 2 months ago
• vsomnath / flexdock
  Composing Unbalanced Flows for Flexible Docking and Relaxation (ICLR 2025)
  ☆43Updated 3 weeks ago
• mjendrusch / salad
  protein structure generation with sparse all-atom denoising models
  ☆34Updated last month
• anton-bushuiev / PPIformer
  Learning to design protein-protein interactions with enhanced generalization (ICLR 2024)
  ☆45Updated 6 months ago
• ShintaroMinami / PyDSSP
  A simplified implementation of DSSP algorithm for PyTorch and NumPy
  ☆88Updated last month
• patrickbryant1 / Cfold
  Structure prediction of alternative protein conformations
  ☆76Updated 4 months ago
• aivant / peppr
  It's a package for evaluation of predicted poses, right?
  ☆58Updated last week
• escalante-bio / boltz-binder-design
  multi-objective protein design
  ☆64Updated 2 weeks ago
• tiwarylab / af2rave
  Boltzmann-ranked alternative protein conformations from reduced-MSA AlphaFold2
  ☆49Updated last week
• lujiarui / Str2Str
  Codebase of the paper "Str2Str: A Score-based Framework for Zero-shot Protein Conformation Sampling" (ICLR 2024)
  ☆78Updated last year
• BioinfoMachineLearning / GCPNet
  A geometry-complete SE(3)-equivariant perceptron network (GCPNet) for 3D graphs. (Bioinformatics)
  ☆47Updated 2 months ago
• PeptoneLtd / proteinmpnn_ddg
  Novel estimator for the change in stability upon point mutation in monomeric and multimeric proteins.
  ☆51Updated last month
• mirabdi / PDAnalysis
  ☆32Updated last year
• ProteinDesignLab / IgVAE
  A variational autoencoder that directly generates the 3D coordinates of immunoglobulin protein backbones.
  ☆28Updated 2 years ago
• amyxlu / plaid
  All-atom protein generation using latent diffusion, with compositional function and taxonomic prompts. http://bit.ly/plaid-proteins
  ☆98Updated last month
• tiwarylab / alphafold2rave
  ☆68Updated last year
• baker-laboratory / CA_RFDiffusion
  ☆55Updated last month
• compsciencelab / mdCATH
  This repository houses all the scripts and notebooks utilized for generating, analyzing, and validating the mdCATH dataset. Some user ex…
  ☆43Updated 7 months ago
• patrickbryant1 / RareFold
  Structure prediction and design of proteins with noncanonical amino acids
  ☆78Updated last week
• shuyana / DiffusionProteinLigand
  ☆78Updated last year
• BioinfoMachineLearning / FlowDock
  A geometric flow matching model for generative protein-ligand docking and affinity prediction. (ISMB 2025)
  ☆95Updated 3 months ago
• Wangchentong / Proteus
  Pytorch implementation for ICML 2024 paper Proteus: Exploring Protein Structure Generation for Enhanced Designability and Efficiency.
  ☆78Updated last year
• Degiacomi-Lab / molearn
  protein conformational spaces meet machine learning
  ☆46Updated 3 weeks ago
• dakpinaroglu / Frame2seq
  Structure-conditioned masked language modeling for protein sequence design
  ☆64Updated last year
• clami66 / AF_unmasked
  Source code and examples for AlphaFold Unmasked
  ☆71Updated last month
• PDBeurope / ccdutils
  A set of python tools to deal with PDB chemical components definitions for small molecules, taken from the wwPDB Chemical Component Dicti…
  ☆60Updated 4 months ago
• Graylab / GeoDock
  Flexible Protein-Protein Docking with a Multi-Track Iterative Transformer.
  ☆98Updated 11 months ago
• KULL-Centre / _2023_Tesei_IDRome
  ☆43Updated 3 months ago