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vmd-mdanalysis-viz

80 / 100 · Low risk

Fine to try. Some of what it can do is expected: a coding skill usually runs build and test commands.

By stanfish06/skillquarium (GitHub) · coding · 12 stars · scanned at commit f748ea9

Headless molecular visualization and trajectory analysis with VMD, MDAnalysis, and GROMACS. Use this skill when Claude needs to: (1) Render proteins/molecules (cartoon, licorice, VDW, surface) headlessly via vmd-python or VMD text mode, (2) Analyze MD trajectories (RMSD, RMSF, radius of gyration, hydrogen bonds, SASA, secondary structure, contacts), (3) Work with PDB/GRO/PSF/XTC/DCD/TRR structure and trajectory formats, (4) Drive GROMACS command-line analysis tools and parse XVG output.

Works with any agent that supports SKILL.md skills.

What this skill can do

Install

Paste this into your terminal. It downloads exactly the version we scanned, not whatever is newest.

if [ -e ~/.agents/skills/'vmd-mdanalysis-viz' ] || [ -L ~/.agents/skills/'vmd-mdanalysis-viz' ]; then echo 'A skill folder named vmd-mdanalysis-viz already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/stanfish06/skillquarium' "$d" && git -C "$d" checkout --quiet 'f748ea91aa51ce8fc42c27c809dba73a8377b1d5' -- 'skills/vmd-mdanalysis-viz' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/vmd-mdanalysis-viz' ~/.agents/skills/'vmd-mdanalysis-viz' && rm -rf "$d"; fi

Codex reads ~/.agents/skills directly. For Claude Code, Cursor, Copilot, Gemini CLI, Antigravity or OpenCode, also link it. For Claude Code: ln -s ~/.agents/skills/'vmd-mdanalysis-viz' ~/.claude/skills/'vmd-mdanalysis-viz' (other agents: ~/.cursor/skills, ~/.copilot/skills, ~/.gemini/skills, ~/.gemini/config/skills, ~/.config/opencode/skills). Or install through the finder skill, which does both.

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