Best practices for protein structure refinement and validation in Coot. Use when performing (1) Residue refinement operations, (2) Model building and fitting, (3) Rotamer fixing, (4) Scripted/automated refinement workflows, (5) Validation and correlation checking.
Install
npx skills add pemsley/coot --skill coot-refinementnpx skills add pemsley/coot --skill coot-refinement -a claude-code -gnpx skills add pemsley/coot --skill coot-refinement -a codex -ggemini skills install https://github.com/pemsley/coot.git --path mcp/docs/skills/refinementgh skill install pemsley/coot coot-refinementgit clone --depth 1 https://github.com/pemsley/coot /tmp/pemsley__coot
mkdir -p ~/.claude/skills ~/.agents/skills
cp -R /tmp/pemsley__coot/mcp/docs/skills/refinement ~/.claude/skills/coot-refinement # Claude Code
cp -R /tmp/pemsley__coot/mcp/docs/skills/refinement ~/.agents/skills/coot-refinement # Codex, Cursor, Gemini CLI, Copilot, OpenCode