Alternatives and similar repositories for oxdna-viewer

Users that are interested in oxdna-viewer are comparing it to the libraries listed below

• lorenzo-rovigatti / oxDNA
  A new version of the code to simulate the oxDNA/oxRNA models, now equipped with Python bindings
  ☆58Updated 2 weeks ago
• avirshup / py3dmol
  ☆127Updated 9 years ago
• sulcgroup / oxdna_analysis_tools
  A set of tools to analyze oxDNA/oxRNA simulations of DNA/RNA
  ☆20Updated 3 years ago
• GrossfieldLab / loos
  LOOS: a lightweight object-oriented structure analysis library
  ☆125Updated 4 months ago
• OpenBioSim / biosimspace
  An interoperable Python framework for biomolecular simulation.
  ☆119Updated 2 weeks ago
• lorenzo-rovigatti / tacoxDNA
  A collection of tools for DNA modelling
  ☆22Updated 3 weeks ago
• choderalab / yank
  An open, extensible Python framework for GPU-accelerated alchemical free energy calculations.
  ☆186Updated 2 years ago
• rlabduke / reduce
  Reduce - tool for adding and correcting hydrogens in PDB files
  ☆152Updated 3 months ago
• Electrostatics / apbs
  Software for biomolecular electrostatics and solvation calculations
  ☆107Updated 11 months ago
• whitead / molcloud
  Make a bunch of molecules
  ☆96Updated 9 months ago
• TinkerTools / tinker
  Tinker: Software Tools for Molecular Design
  ☆144Updated this week
• drorlab / pensa
  PENSA - a collection of python methods for exploratory analysis and comparison of biomolecular conformational ensembles.
  ☆142Updated 6 months ago
• Acellera / moleculekit
  MoleculeKit: Your favorite molecule manipulation kit
  ☆226Updated last month
• samuelmurail / gromacs_py
  Gromacs_py is a python library allowing a simplified use of the gromacs MD simulation software. Gromacs_py can build topologie based on a…
  ☆49Updated 3 years ago
• jensengroup / propka
  PROPKA predicts the pKa values of ionizable groups in proteins and protein-ligand complexes based in the 3D structure.
  ☆316Updated last year
• jgreener64 / mmterm
  View proteins and trajectories in the terminal
  ☆110Updated 5 years ago
• samirelanduk / atomium
  Python macromolecular parsing (with .pdb/.cif/.mmtf parsing and production)
  ☆106Updated last year
• mittinatten / freesasa
  C-library for calculating Solvent Accessible Surface Areas
  ☆153Updated last month
• Tsjerk / Insane
  INSert membrANE - A simple, versatile tool for building coarse-grained simulation systems
  ☆65Updated last year
• jalemkul / gmx_tutorials_livecoms
  LiveCoMS GROMACS Tutorials Paper
  ☆125Updated 6 years ago
• Amber-MD / pytraj
  Python interface of cpptraj
  ☆181Updated 7 months ago
• osmart / hole2
  Source code for HOLE program.
  ☆35Updated last year
• MooersLab / pymolshortcuts
  The repository pymolschortucts contains the a collection of shortcuts that are loaded on startup of PyMOL. These shortcuts enable websear…
  ☆80Updated last year
• deGrootLab / pmx
  Toolkit for free-energy calculation setup/analysis and biomolecular structure handling
  ☆157Updated 2 weeks ago
• whitead / molbloom
  Molecular bloom filter tool
  ☆121Updated last week
• molmod / openmm-tutorial-msbs
  OpenMM tutorial for the MSBS course
  ☆172Updated this week
• lcbb / athena
  A GUI for automated sequence design of wireframe scaffolded DNA origami
  ☆14Updated 3 years ago
• Gallicchio-Lab / AToM-OpenMM
  OpenMM-based framework for absolute and relative binding free energy calculations with the Alchemical Transfer Method
  ☆137Updated this week
• project-gemmi / gemmi
  macromolecular crystallography library and utilities
  ☆283Updated this week
• Valdes-Tresanco-MS / AMDock
  (Linux and macOS) AMDock: Assisted molecular docking with AutoDock4 and AutoDockVina
  ☆70Updated 2 years ago