GROMACS
High-throughput biomolecular dynamics for proteins, lipids, and nucleic acids, tuned for GPU offload and multi-node MPI.
Run LAMMPS on Slurm-backed HPC at WECORE: classical molecular dynamics from atomistic to coarse-grained and mesoscale models, with spatial decomposition across MPI ranks and GPU acceleration.
LAMMPS is a classical molecular dynamics code built around spatial decomposition and a very large library of interatomic potentials, from simple Lennard-Jones through EAM and ReaxFF to machine-learned potentials.
It is deliberately modular. Most groups use it as a simulation engine they script, rather than as a fixed application.
Follow fracture, dislocation dynamics, and mechanical response at atomistic resolution, where a continuum model stops answering the question.
Simulate surfaces, interfaces, and layered systems, where the structure at the boundary sets the behaviour of the whole.
Reach time and length scales an all-atom model cannot, including granular and mesoscale flows.
Work with ReaxFF and related potentials where bonds break and form and a fixed bond topology will not do.
Submit input scripts to the queue and let spatial decomposition spread the simulation box across MPI ranks, so a model that will not fit on one node runs across the cluster. Parameter sweeps go out as job arrays.
The GPU packages move pair and neighbour computation onto accelerator nodes wherever the potential supports it. That is usually the difference between a run measured in weeks and one measured in days.