protein-struct-viz
Generate PyMOL scripts to highlight specific protein residues in PDB structures. Use this skill when the user needs to visualize specific amino acid residues, create publication-quality protein images, or highlight functional sites in protein structures.
Install with Tessl CLI
npx tessl i github:aipoch/medical-research-skills --skill protein-struct-viz73
Does it follow best practices?
If you maintain this skill, you can automatically optimize it using the tessl CLI to improve its score:
npx tessl skill review --optimize ./path/to/skillValidation for skill structure
Discovery
100%Based on the skill's description, can an agent find and select it at the right time? Clear, specific descriptions lead to better discovery.
This is a well-crafted skill description that excels across all dimensions. It clearly specifies the concrete capability (PyMOL script generation for protein visualization), includes domain-appropriate trigger terms that users in structural biology would naturally use, and explicitly states both what the skill does and when to use it. The specialized domain (structural biology/protein visualization) makes it highly distinctive.
| Dimension | Reasoning | Score |
|---|---|---|
Specificity | Lists multiple specific concrete actions: 'Generate PyMOL scripts', 'highlight specific protein residues', 'visualize specific amino acid residues', 'create publication-quality protein images', 'highlight functional sites'. Uses third person voice correctly. | 3 / 3 |
Completeness | Clearly answers both what ('Generate PyMOL scripts to highlight specific protein residues in PDB structures') and when ('Use this skill when the user needs to visualize specific amino acid residues, create publication-quality protein images, or highlight functional sites'). | 3 / 3 |
Trigger Term Quality | Includes natural keywords users would say: 'PyMOL', 'protein residues', 'PDB structures', 'amino acid residues', 'publication-quality protein images', 'functional sites', 'protein structures'. Good coverage of domain-specific terms. | 3 / 3 |
Distinctiveness Conflict Risk | Very clear niche targeting PyMOL scripting for protein visualization. The combination of 'PyMOL', 'PDB structures', 'protein residues', and 'amino acid' creates a distinct domain unlikely to conflict with other skills. | 3 / 3 |
Total | 12 / 12 Passed |
Implementation
35%Reviews the quality of instructions and guidance provided to agents. Good implementation is clear, handles edge cases, and produces reliable results.
This skill is heavily padded with template boilerplate (risk assessments, security checklists, evaluation criteria) that provides no value to Claude and obscures the actual guidance. The core functionality description is reasonable but lacks concrete PyMOL command examples and validation steps. The skill would benefit from removing administrative sections and adding executable examples of generated output.
Suggestions
Remove the Risk Assessment, Security Checklist, Evaluation Criteria, and Lifecycle Status sections - these are administrative overhead that Claude doesn't need
Add a concrete example of the generated .pml script output showing actual PyMOL commands (load, select, show, color, etc.)
Include validation guidance for residue specifications (e.g., how to verify chain/residue exists in the PDB file before generating the script)
Add common error cases and how to handle them (invalid PDB ID, non-existent residue, malformed chain specification)
| Dimension | Reasoning | Score |
|---|---|---|
Conciseness | Contains significant bloat: risk assessment tables, security checklists, evaluation criteria, lifecycle status, and technical difficulty sections that Claude doesn't need. The actual actionable content is buried under boilerplate. | 1 / 3 |
Actionability | Provides one concrete CLI example with parameters, but lacks the actual script generation logic or PyMOL command examples. The input parameters table describes what to provide but not how the output is structured or what PyMOL commands are generated. | 2 / 3 |
Workflow Clarity | The workflow is implicit: run a Python script, get a .pml file, execute in PyMOL. No validation steps for checking if residue specifications are valid, no error handling guidance, and no feedback loop for iterating on visualizations. | 2 / 3 |
Progressive Disclosure | References a 'references/' directory for additional materials which is good, but the main file is cluttered with sections that should either be removed or moved elsewhere (risk assessment, security checklist, lifecycle status). | 2 / 3 |
Total | 7 / 12 Passed |
Validation
90%Checks the skill against the spec for correct structure and formatting. All validation checks must pass before discovery and implementation can be scored.
Validation — 10 / 11 Passed
Validation for skill structure
| Criteria | Description | Result |
|---|---|---|
frontmatter_unknown_keys | Unknown frontmatter key(s) found; consider removing or moving to metadata | Warning |
Total | 10 / 11 Passed | |
- Reviewed
Table of Contents
Is this your skill?
If you maintain this skill, you can claim it as your own. Once claimed, you can manage eval scenarios, bundle related skills, attach documentation or rules, and ensure cross-agent compatibility.