Productivity skills

Performs structure-based virtual screening using AutoDock Vina, SMINA, GNINA (CNN scoring), and DiffDock-L hybrid workflows with explicit choice rules across rigid vs flexible docking, cross-docking vs self-docking, binding-site detection (P2Rank, fpocket), receptor preparation (PDB2PQR, PROPKA), ligand preparation (meeko, OpenBabel), and ultralarge-library screening (ZINC22, Enamine REAL). Use when screening chemical libraries against a protein target to find candidate binders, ranking docking poses, or selecting a docking workflow for a specific scenario.

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Builds and applies 3D pharmacophore models using RDKit Pharm3D, the apo2ph4 receptor-based workflow (Heider et al 2022/2023 J Chem Inf Model 63:147-158), Pharmer / Pharmit (search), and PharmacoForge (diffusion-based generation, Flynn et al 2025 Front Bioinform), covering ligand-based pharmacophore (from active set alignment) and receptor-based pharmacophore (from binding pocket geometry). Explicit handling of feature types, geometric tolerances, partial matching, and pharmacophore-based virtual screening. Use when identifying scaffold-hopping candidates, building shape-and-feature search queries, or transferring SAR across chemotypes.

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Continue working on an OpenSpec change by creating the next artifact. Use when the user wants to progress their change, create the next artifact, or continue their workflow.

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Archive a completed change in the experimental workflow. Use when the user wants to finalize and archive a change after implementation is complete.

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Start a new OpenSpec change using the experimental artifact workflow. Use when the user wants to create a new feature, fix, or modification with a structured step-by-step approach.

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Implement tasks from an OpenSpec change. Use when the user wants to start implementing, continue implementation, or work through tasks.

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Guided onboarding for OpenSpec - walk through a complete workflow cycle with narration and real codebase work.

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Autonomous bug-hunt workflow for the Humans repository. Use when the user wants Codex to scan for real bugs, work in a dedicated git worktree branched from origin/main, commit each fix separately, push progress, and continue until diminishing returns.

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Autonomous tech-debt reduction workflow for the Humans repository. Use when the user wants Codex to improve high-value code quality issues in a dedicated git worktree branched from origin/main, commit each improvement separately, push progress, and continue until diminishing returns.

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Configure development tasks, git hooks, CI/CD, or release automation. Use when creating or fixing a repository development workflow.

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When the user wants to optimize post-signup onboarding, user activation, first-run experience, or time-to-value. Also use when the user mentions "onboarding flow," "activation rate," "user activation," "first-run experience," "empty states," "onboarding checklist," "aha moment," or "new user experience." For signup/registration optimization, see signup-flow-cro. For ongoing email sequences, see email-sequence.

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Turn product requirements into scoped tasks with dependencies and acceptance criteria. Use for implementation planning and prioritization.

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Ultrawork - high-quality 5-phase development workflow with 11 review steps out of 17

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Build AI personas with personality and expertise. TRIGGERS - Use when user needs help with ai-persona-builder related tasks.

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Optimize AI system latency and throughput. TRIGGERS - Use when user needs help with ai-latency-optimizer related tasks.

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Build AI lead scoring systems. TRIGGERS - Use when user needs help with ai-lead-scorer related tasks.

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Build AI meeting assistants with notes and actions. TRIGGERS - Use when user needs help with ai-meeting-assistant related tasks.

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Plan AI platform migrations between providers. TRIGGERS - Use when user needs help with ai-migration-plan related tasks.

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Build integration hubs connecting AI services. TRIGGERS - Use when user needs help with ai-integration-hub related tasks.

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Write model cards documenting AI capabilities. TRIGGERS - Use when user needs help with ai-model-card-writer related tasks.

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Evaluate AI model performance with metrics, benchmarks, and comparison. TRIGGERS - Use when user needs help with ai-model-evaluator related tasks.

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Assess organizational AI maturity. TRIGGERS - Use when user needs help with ai-maturity-model related tasks.

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Build AI inventory optimization systems. TRIGGERS - Use when user needs help with ai-inventory-optimizer related tasks.

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Build AI content moderation systems. TRIGGERS - Use when user needs help with ai-moderation-system related tasks.

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