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Search results for python gromacs

18 search results found

Gmx_mmpbsa ⭐ 164

gmx_MMPBSA is a new tool based on AMBER's MMPBSA.py aiming to perform end-state free energy calculations with GROMACS files.

OFFICIAL: AnteChamber PYthon Parser interfacE

Gromacswrapper ⭐ 154

GromacsWrapper wraps system calls to GROMACS tools into thin Python classes (GROMACS 4.6.5 - 2023 supported).

a python package for the interfacial analysis of molecular simulations

Mdbenchmark ⭐ 67

Quickly generate, start and analyze benchmarks for molecular dynamics simulations.

Gromacs to Lammps simulation converter

Openff Interchange ⭐ 57

A project (and object) for storing, manipulating, and converting molecular mechanics data.

Pycgtool ⭐ 30

Generate coarse-grained molecular dynamics models from atomistic trajectories.

Calculation of water/solvent partition coefficients with Gromacs.

Protocaller ⭐ 18

Full automation of relative protein-ligand binding free energy calculations in GROMACS

Peggenerator ⭐ 17

Generate PEG topology for GROMACS and LAMMPS

Do_x3dna ⭐ 17

To analyze fluctuations in DNA or RNA structures in molecular dynamics trajectories.

Nmrformd ⭐ 16

NMRforMD is a python script for the calculation of NMR relaxation time T1 and T2 from molecular dynamics trajectory file.

Conversion of coarsegrain to atomistic (complete rewrite of the original CG2AT)

Python bindings for TNG file format

Md Alaninedipeptide ⭐ 11

Molecular Dynamics Simulation of Alanine Dipeptide and Dihedral Angle Analysis

Paratemp ⭐ 10

A package for molecular dynamics analysis and parallel tempering in GROMACS

Gromacstutorials.github.io ⭐ 7

Repository of the gromacstutorials webpage

Peptidesim ⭐ 5

Automated peptide simulation tool with gromacs, gromacswrapper, plumed

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