context-initialization
Always Auto-invoked skill that creates/updates workspace AGENTS.md to instruct the agent to always search for existing skills before attempting any scientific task.
benchling-integration
Benchling R&D platform integration. Access registry (DNA, proteins), inventory, ELN entries, workflows via API, build Benchling Apps, query Data Warehouse, for lab data management automation.
dnanexus-integration
DNAnexus cloud genomics platform. Build apps/applets, manage data (upload/download), dxpy Python SDK, run workflows, FASTQ/BAM/VCF, for genomics pipeline development and execution.
labarchive-integration
Electronic lab notebook API integration. Access notebooks, manage entries/attachments, backup notebooks, integrate with Protocols.io/Jupyter/REDCap, for programmatic ELN workflows.
latchbio-integration
Latch platform for bioinformatics workflows. Build pipelines with Latch SDK, @workflow/@task decorators, deploy serverless workflows, LatchFile/LatchDir, Nextflow/Snakemake integration.
omero-integration
Microscopy data management platform. Access images via Python, retrieve datasets, analyze pixels, manage ROIs/annotations, batch processing, for high-content screening and microscopy workflows.
opentrons-integration
Lab automation platform for Flex/OT-2 robots. Write Protocol API v2 protocols, liquid handling, hardware modules (heater-shaker, thermocycler), labware management, for automated pipetting workflows.
protocolsio-integration
Integration with protocols.io API for managing scientific protocols. This skill should be used when working with protocols.io to search, create, update, or publish protocols; manage protocol steps and materials; handle discussions and comments; organize workspaces; upload and manage files; or integrate protocols.io functionality into workflows. Applicable for protocol discovery, collaborative protocol development, experiment tracking, lab protocol management, and scientific documentation.
exploratory-data-analysis
EDA toolkit. Analyze CSV/Excel/JSON/Parquet files, statistical summaries, distributions, correlations, outliers, missing data, visualizations, markdown reports, for data profiling and insights.
hypothesis-generation
Generate testable hypotheses. Formulate from observations, design experiments, explore competing explanations, develop predictions, propose mechanisms, for scientific inquiry across domains.
literature-review
Conduct comprehensive, systematic literature reviews using multiple academic databases (PubMed, arXiv, bioRxiv, Semantic Scholar, etc.). This skill should be used when conducting systematic literature reviews, meta-analyses, research synthesis, or comprehensive literature searches across biomedical, scientific, and technical domains. Creates professionally formatted markdown documents and PDFs with verified citations in multiple citation styles (APA, Nature, Vancouver, etc.).
peer-review
Systematic peer review toolkit. Evaluate methodology, statistics, design, reproducibility, ethics, figure integrity, reporting standards, for manuscript and grant review across disciplines.
scientific-brainstorming
Research ideation partner. Generate hypotheses, explore interdisciplinary connections, challenge assumptions, develop methodologies, identify research gaps, for creative scientific problem-solving.
scientific-critical-thinking
Evaluate research rigor. Assess methodology, experimental design, statistical validity, biases, confounding, evidence quality (GRADE, Cochrane ROB), for critical analysis of scientific claims.
scientific-visualization
Create publication figures with matplotlib/seaborn/plotly. Multi-panel layouts, error bars, significance markers, colorblind-safe, export PDF/EPS/TIFF, for journal-ready scientific plots.
scientific-writing
Write scientific manuscripts. IMRAD structure, citations (APA/AMA/Vancouver), figures/tables, reporting guidelines (CONSORT/STROBE/PRISMA), abstracts, for research papers and journal submissions.
statistical-analysis
Statistical analysis toolkit. Hypothesis tests (t-test, ANOVA, chi-square), regression, correlation, Bayesian stats, power analysis, assumption checks, APA reporting, for academic research.
condition-based-waiting
Use when tests have race conditions, timing dependencies, or inconsistent pass/fail behavior - replaces arbitrary timeouts with condition polling to wait for actual state changes, eliminating flaky tests from timing guesses
defense-in-depth
Use when invalid data causes failures deep in execution, requiring validation at multiple system layers - validates at every layer data passes through to make bugs structurally impossible
testing-anti-patterns
Use when writing or changing tests, adding mocks, or tempted to add test-only methods to production code - prevents testing mock behavior, production pollution with test-only methods, and mocking without understanding dependencies
testing-skills-with-subagents
Use when creating or editing skills, before deployment, to verify they work under pressure and resist rationalization - applies RED-GREEN-REFACTOR cycle to process documentation by running baseline without skill, writing to address failures, iterating to close loopholes
verification-before-completion
Use when about to claim work is complete, fixed, or passing, before committing or creating PRs - requires running verification commands and confirming output before making any success claims; evidence before assertions always
content-research-writer
Assists in writing high-quality content by conducting research, adding citations, improving hooks, iterating on outlines, and providing real-time feedback on each section. Transforms your writing process from solo effort to collaborative partnership.
file-organizer
Intelligently organizes your files and folders across your computer by understanding context, finding duplicates, suggesting better structures, and automating cleanup tasks. Reduces cognitive load and keeps your digital workspace tidy without manual effort.
invoice-organizer
Automatically organizes invoices and receipts for tax preparation by reading messy files, extracting key information, renaming them consistently, and sorting them into logical folders. Turns hours of manual bookkeeping into minutes of automated organization.
raffle-winner-picker
Picks random winners from lists, spreadsheets, or Google Sheets for giveaways, raffles, and contests. Ensures fair, unbiased selection with transparency.
ship-learn-next
Transform learning content (like YouTube transcripts, articles, tutorials) into actionable implementation plans using the Ship-Learn-Next framework. Use when user wants to turn advice, lessons, or educational content into concrete action steps, reps, or a learning quest.
prd-taskmaster
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mcp-skill-creator
Meta-skill for creating workflow-optimized skills from MCP servers. Use when users want to create a custom skill that integrates one or more MCP servers into a specialized workflow. The user provides MCP server configurations and describes their work scenario (workflow, preferences, SOPs), and this skill generates a new skill with optimized scripts following Anthropic's MCP + code execution best practices.
skill-customizer
Customize existing skills through iterative improvement based on user feedback and preferences. Use when users want to personalize a skill to match their specific workflow, output preferences, domain requirements, or company standards by forking and iteratively refining an existing skill.
skill-evaluator
Comprehensive evaluation toolkit for analyzing Claude skills across security, quality, utility, and compliance dimensions. This skill should be used when users need to evaluate a skill before installation, review before publishing, or assess overall quality and safety. Performs 5-layer security analysis, validates structure and documentation, checks compliance with skill-creator guidelines, and generates markdown reports with scoring and recommendations.
ReasoningBank Intelligence
Implement adaptive learning with ReasoningBank for pattern recognition, strategy optimization, and continuous improvement. Use when building self-learning agents, optimizing workflows, or implementing meta-cognitive systems.
json-formatter
Validate, format, and minify JSON files when users request JSON validation, formatting, or ask to validate their JSONs
vsdd
Verified Spec-Driven Development (VSDD) workflow. Fuses SDD + TDD + VDD into a single AI-orchestrated pipeline. Enforces: Spec Crystallization -> Test-First Implementation -> Adversarial Refinement -> Formal Hardening -> Convergence. Use when user invokes /vsdd.
deployer-workflow
Full-stack development workflow that orchestrates deployer agents (backend, frontend, database, testing, review) in a phased pipeline. Asks which backend language (Java/Go/Rust) then runs all agents.
bruno-generator
Scans the entire codebase, detects all HTTP/API endpoints across Java/Spring Boot, Node/Express, Go/Gin, Rust/Actix+Axum, Python/Django, and generates a complete Bruno API client project with .bru files, sample requests, and environments.
reverse-post-site
Reads reverse-postmortem.md and renders a self-contained static site (reverse-postmortem-site/index.html) with a risk dashboard, per-incident cards, causal-chain visuals, and action-item checklists. No build step, no external dependencies.
reverse-post
Scans the codebase, predicts the most likely future incidents, and writes each as a full past-tense postmortem (timeline, root cause at file:line, detection gap, preventive action items) into reverse-postmortem.md.
runbook-generator
Reads the full codebase, detects service architecture and dependencies, then generates operational runbooks for common failure modes into runbook.md.
hats
Analyze a prompt with Edward de Bono's Six Thinking Hats and produce a polished, self-contained HTML report. Use when the user invokes /hats or $hats, requests Six Thinking Hats analysis, wants a decision reviewed from factual, emotional, cautious, optimistic, creative, and process perspectives, or asks for an illustrated HTML decision report.
accessibility-auditor
Audits a running web page for WCAG accessibility issues, captures a screenshot and annotates it with a numbered box over every problem, then renders a self-contained light-theme website with the score, the annotated screenshot, and a fix for each finding. Use when the user runs /accessibility-auditor or asks to audit, check, or report a site's accessibility, WCAG compliance, alt text, color contrast, labels, or screen-reader support.
branch-tombs
Builds a branch graveyard for a git repository. Reads every local and remote branch, records who last touched it and when, computes age, ahead/behind, and whether it is merged into the trunk, then renders a light-theme website that shows the stale branches as headstones and lists the ones that are safe to delete. Use when the user runs /branch-tombs or asks about stale, dead, abandoned, or old branches, branch cleanup, or which branches are safe to prune.
bug-cataloger
Find bugs that were encountered and solved in prior Claude Code or Codex sessions for the current project, then generate a self-contained searchable light-theme HTML bug report. Use when the user asks for a bug catalog, solved-problem history, prior-session bug report, recurring failure inventory, or a BUG to Solution report for the current repository.
bug-recording
Detect whether a target web project is a React app on Node or Bun, run it, hunt for CSS / functional / render bugs with Playwright, and record an optimized video of each bug. Use when the user runs /bug-recording or asks to find and record UI bugs in an app.
bug-report
Render a self-contained light-theme website with three tabs (bugs found, bug videos, reproduction steps) from a bug-recording output directory. Use when the user runs /bug-report or asks to turn recorded bug findings into a report site.
bundle-size
Attributes a frontend project's JavaScript bundle size to the imports that caused it, then renders a light-theme analytics website. Bundles the app with esbuild, reads the metafile, and reports how many minified KB each npm package and source module added. Use when the user runs /bundle-size or asks which import is the heaviest, what is bloating the bundle, or for a bundle-size / import-cost report.
bus-factor
Builds a knowledge-risk heatmap of a git repository. Runs git blame across tracked files, finds the ones owned by a single person, computes a bus factor per file, directory, and author, and renders a light-theme website that shows where knowledge is concentrated. Use when the user runs /bus-factor or asks where the project's knowledge risk, single points of failure, or single-owner code lives.
bs-claudemd
Audit a CLAUDE.md for cruft and render a light-theme report website. Reads the file line by line and flags vague rules with no checkable criterion, low-signal lines that only restate what the model already does, overlapping rules said more than once, and internal contradictions, then scores the file with a BS-o-meter and grade. Can also diff two CLAUDE.md files and flag rules that tell the model opposite things. Use when the user runs /bs-claudemd or asks to review, audit, grade, lint, or clean up a CLAUDE.md / AGENTS.md / agent instructions file, or to compare two of them.
data-dict
Reads a codebase and discovers its database schema wherever it is defined — Liquibase changelogs, raw SQL run through JDBC, and Hibernate/JPA entities — merges them into one model, and renders a self-contained light-theme website with three tabs (a per-table data dictionary, a hand-drawn ER diagram, and an in-browser SQL query console). Use when the user runs /data-dict or asks to document, map, visualize, or generate a data dictionary for a project's database schema.
dead-code
Find dead Java code by static reachability from entry points. Parses the sources, builds the method call graph, walks it from real entry points (main, Spring web/lifecycle/scheduler handlers, JUnit tests, framework callbacks), and renders a light-theme website with summary cards, a reachable-vs-dead chart, and a grouped list of every unreachable method and dead class. Use when the user runs /dead-code or asks to find dead, unused, or unreachable code, or which methods and classes are safe to delete.
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