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Create interactive inline Chart.js graphs directly in the chat from live Coot data. Use this skill whenever the user asks to plot, graph, chart, or visualise any per-residue data from Coot — B-factors, density correlations, Ramachandran probabilities, rotamer scores, or any other per-residue metr...
Using Density-Fit Correlations in Coot
Query the PDBe (Protein Data Bank in Europe) REST API and Solr search API from within Coot to access structure metadata, validation data, revision history, search capabilities, and download coordinate files
Best practices for creating publication-quality molecular graphics figures in Coot using user-defined colors, ribbons, and molecular representations
RDKit molecular manipulation and visualization within Coot's Python environment. Use when working with Coot and need to (1) Create RDKit molecules from Coot monomers, (2) Modify molecular structures (e.g., atom substitution), (3) Generate 2D chemical structure diagrams, (4) Perform cheminformatic...
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.
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