Alternatives and similar repositories for PDAnalysis

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

• pstansfeld / MemProtMD
  ☆42Updated last month
• liedllab / surface_analyses
  Scores for Hydrophobicity and Charges based on SASAs
  ☆31Updated 2 weeks ago
• matteoferla / pyrosetta-help
  Some scripts that I keep using over and over.
  ☆18Updated 5 months ago
• PeptoneLtd / proteinmpnn_ddg
  Novel estimator for the change in stability upon point mutation in monomeric and multimeric proteins.
  ☆49Updated last month
• tiwarylab / af2rave
  Boltzmann-ranked alternative protein conformations from reduced-MSA AlphaFold2
  ☆48Updated 2 weeks ago
• CSB-KaracaLab / prot-on
  This repo contains the collection of codes to find designer interfacial mutations
  ☆17Updated last year
• patrickbryant1 / MoLPC
  Modelling of Large Protein Complexes
  ☆37Updated last year
• haddocking / arctic3d
  Automatic Retrieval and ClusTering of Interfaces in Complexes from 3D structural information
  ☆30Updated 2 weeks ago
• Kuhlman-Lab / alphafold3
  Kuhlman Lab Installation of AlphaFold3
  ☆26Updated last month
• GMdSilva / gms_natcomms_1705932980_data
  Data sharing for High-throughput Prediction of Changes in Protein Conformational Distributions with Subsampled AlphaFold2
  ☆39Updated last year
• data2code / afpdb
  Efficient manipulation of protein structures in Python
  ☆54Updated 7 months ago
• ShenLab / SeqDance
  code for SeqDance/ESMDance, biophysics-informed protein language models
  ☆37Updated 2 months ago
• KULL-Centre / CALVADOS
  ☆66Updated last week
• bene837 / af2seq
  ☆43Updated 9 months ago
• mjendrusch / salad
  protein structure generation with sparse all-atom denoising models
  ☆32Updated 3 weeks ago
• kamerlinlab / KIN
  Repo for the publication titled: "Key Interaction Networks: Identifying Evolutionarily Conserved Non-Covalent Interaction Networks Across…
  ☆17Updated last year
• svats73 / mdml
  mdml: Deep Learning for Molecular Simulations
  ☆42Updated last month
• JoaoRodrigues / interfacea
  An open-source library for the analysis of protein interactions.
  ☆29Updated 3 years ago
• tiwarylab / alphafold2rave
  ☆68Updated 11 months ago
• BioComputingUP / ring-pymol
  This is the public repository for the RING PyMOL plugin developed by the BioComputing UP laboratory at the University of Padua
  ☆27Updated 4 months ago
• iamysk / AFsample2
  Modelling protein conformational landscape with Alphafold
  ☆51Updated 2 weeks ago
• bwicky / oligomer_hallucination
  ☆35Updated last year
• ohuelab / ColabDesign-cyclic-binder
  ☆32Updated last year
• KULL-Centre / _2024_Cao_CALVADOSCOM
  ☆16Updated 2 months ago
• patrickbryant1 / RareFold
  Structure prediction and design of proteins with noncanonical amino acids
  ☆72Updated 3 weeks ago
• RSvan / SPEACH_AF
  ☆16Updated 10 months ago
• iambic-therapeutics / np-bench
  A benchmark for 3D biomolecular structure prediction models
  ☆60Updated last month
• KosinskiLab / alphafold3x
  Explicit crosslinks in AlphaFold 3
  ☆22Updated 3 months ago
• drhicks / Kejia_peptide_binders
  code for IDR binding paper 2025
  ☆18Updated 4 months ago
• sokrypton / af2bind
  ☆50Updated 3 months ago