Traj Desk

Paste a multi-model PDB MD trajectory: your browser aligns it and computes RMSD, per-residue RMSF, radius of gyration and ligand contacts exactly as MDAnalysis 2.9 does, and flags periodic wraps, drift and a ligand that left - free. A metered run reads what the frames support or writes the MDAnalysis script that reproduces them. Derived from the agent skill @k-dense-ai/molecular-dynamics (k-dense-ai/scientific-agent-skills).

Every public app is built from a security-scanned skill and must pass a clean scan — skill and frontend — before it can be listed. Have a skill of your own? Turn it into an app — or read the step-by-step walkthrough.