Ingest, QC, and map reads with reproducible outputs. Use for raw read processing and coverage stats.

Generate reproducible bioinformatics/data-science Methods + run documentation from workflow run artifacts (Nextflow/Snakemake/CWL), including a top-of-doc workflow summary, exact executed commands, tool versions, parameters, QC, and outputs.

Set up and execute phylogenetic biogeographic analyses using BioGeoBEARS in R. Use when users request biogeographic reconstruction, ancestral range estimation, or want to analyze species distributions on phylogenies. Handles input file validation, data reformatting, RMarkdown workflow generation, and result visualization.

Use when implementing data analysis pipelines, statistical tests, or bioinformatics workflows in code (Python/R), particularly for genomics, transcriptomics, proteomics, or other -omics data.

Orchestrate hypothesis-driven bioinformatics research projects.

Expert-level biology, biotechnology, genetics, bioinformatics, and computational biology

Use when evaluating biological relevance, methodological appropriateness, or scientific validity of bioinformatics approaches, or when choosing between analysis methods/software tools.

Comprehensive biology expert from molecular biology to ecology, covering cell biology, genetics, evolution, and physiology

End-to-end biomarker discovery workflow from expression data to validated biomarker panels. Covers feature selection with Boruta/LASSO, classifier training with nested CV, and SHAP interpretation. Use when building and validating diagnostic or prognostic biomarker signatures from omics data.

Update Biome linting rules, formatting configs, and import organization settings. Use when adding new lint rules, customizing code style, or fixing workspace-specific linting issues.

Use when biome configuration including biome.json setup, schema versions, VCS integration, and project organization.

Use when formatting JavaScript/TypeScript code with Biome's fast formatter including patterns, options, and code style management.

Use when applying Biome's linting capabilities, rule categories, and code quality enforcement to JavaScript/TypeScript projects.

Biome linter/formatter setup. Use when configuring Biome as an alternative to ESLint + Prettier.

Biome 2.x linting and formatting patterns. Use when configuring code quality tools, setting up linting rules, formatting code, or integrating with CI/CD. Covers migration from ESLint/Prettier.

Validates jump metrics against physiological norms. Use when analyzing CMJ or drop jump results, discussing RSI values, jump heights, ground contact times, or when metrics seem unusual.

Uses Oura ring data to make energy-aware decisions about scheduling, task prioritization, and recovery recommendations. Understands HRV, sleep quality, readiness scores, and their implications for productivity.

Expert on ROM/BIOS for ES-1841. Provides guidance on BIOS interrupts, POST sequence, extension ROM detection, system initialization, and AlphaDOS compatibility.

Extract paper references and concepts from a LaTeX repository for the bipartite knowledge graph.

Generate thematic, prose-style narrative digests from GitHub activity

Check remote server CPU, memory, and GPU availability via SSH

Automate Philippine BIR (Bureau of Internal Revenue) tax form generation and filing. Handles 1601-C (withholding tax), 2550Q (quarterly VAT), 1702-RT/EX (annual income tax), and ATP (Authorization to Print) validation. Ensures 100% compliance with BIR regulations.

Bisulfite sequencing read alignment using Bismark with bowtie2/hisat2. Handles genome preparation and produces BAM files with methylation information. Use when aligning WGBS, RRBS, or other bisulfite-converted sequencing reads to a reference genome.

Comprehensive Bitbucket pipeline automation using direct Node.js API calls. Monitor pipeline status, analyze failures, download logs, and trigger builds. Use this skill when the user asks to check pipeline status, find failing pipelines, download logs, trigger builds, or debug pipeline failures. No MCP approval prompts required - uses Bash tool with node commands.

This skill enables interaction with BitBucket Server REST API for Pull Request management. Use when the user wants to create, review, comment on, merge, list pull requests, read comments, or manage tasks on BitBucket Server.

Create PRs and debug pipeline failures in Bitbucket with Carefeed conventions. Auto-extracts Jira keys from branches, generates PR descriptions, and diagnoses CI failures. Use when user mentions PRs, pipelines, or CI/CD.

Manage repositories, check pipelines, review PRs, and collaborate on Bitbucket

Comprehensive Bitcoin mining knowledge from 7 industry reports covering 2024 market overview, mining economics, operational handbooks, heat reuse strategies, mining glossary, Stratum V2 protocol specifications, and ultimate mining handbook. Use when planning mining operations, analyzing profitability, optimizing energy efficiency, understanding mining terminology, or exploring sustainable mining practices.

Quantizes LLMs to 8-bit or 4-bit for 50-75% memory reduction with minimal accuracy loss. Use when GPU memory is limited, need to fit larger models, or want faster inference. Supports INT8, NF4, FP4 formats, QLoRA training, and 8-bit optimizers. Works with HuggingFace Transformers.

Word, Excel, PPT, PDF 등 기업용 문서를 생성하고, 결과를 docs/exports에 저장하며 임시파일을 자동 정리합니다.

Use when exploring Bknd's auto-generated API endpoints. Covers REST endpoint patterns, route listing, module base paths, SDK method mapping, admin panel API explorer, and understanding the API structure.

Use when assigning permissions to roles in Bknd. Covers permission syntax (simple strings, extended format), permission effects (allow/deny), policies with conditions, entity-specific permissions, and fine-grained access control patterns.

Use when setting up Bknd SDK in a frontend application. Covers Api class initialization, token storage, auth state handling, React integration with BkndBrowserApp and useApp hook, framework-specific setup (Vite, Next.js, standalone), and TypeScript type registration.

Use when inserting new records into a Bknd entity via the SDK or REST API. Covers createOne, createMany, creating with relations ($set), response handling, error handling, and common patterns for client-side record creation.

Use when creating custom API endpoints in Bknd. Covers HTTP triggers with Flows, plugin routes via onServerInit, request/response handling, sync vs async modes, accessing request data, and returning custom responses.

Use when troubleshooting Bknd issues, debugging errors, fixing common problems, or diagnosing why something isn't working. Covers CLI debug commands, error codes, logging, common issues and solutions.

Use when deploying a Bknd application to production hosting. Covers Cloudflare Workers/Pages, Node.js/Bun servers, Docker, Vercel, AWS Lambda, and other platforms.

Use when configuring environment variables for Bknd projects. Covers .env files, secrets management, env injection in config, platform-specific variables, and production security.

Use when modifying existing Bknd schema. Covers renaming entities, renaming fields, changing field types, altering field constraints, handling destructive changes, data migration strategies, and the sync workflow.

Use when preparing a Bknd application for production deployment. Covers security hardening, environment configuration, isProduction flag, JWT settings, Guard enablement, CORS, media storage, and production checklist.

Use when securing specific API endpoints in Bknd. Covers protecting custom HTTP triggers, plugin routes, auth middleware for Flows, checking permissions in custom endpoints, and role-based endpoint access.

Use when setting up user registration flows in a Bknd application. Covers registration configuration, enabling/disabling registration, default roles, password validation, registration forms, and custom fields.

Use when implementing row-level security (RLS) in Bknd. Covers filter policies, user ownership patterns, public/private records, entity-specific RLS, multi-tenant isolation, and data-level access control.

Use when populating a Bknd database with initial or test data. Covers the seed function in options, ctx.em.mutator() for insertOne/insertMany, conditional seeding, environment-based data, and common patterns for dev/test fixtures.

Use when writing tests for Bknd applications, setting up test infrastructure, creating unit/integration tests, or testing API endpoints. Covers in-memory database setup, test helpers, mocking, and test patterns.

Apply Eskil Steenberg's black box architecture principles to build modular, maintainable software. Automatically refactors code into replaceable components, designs system architectures with clean boundaries, and debugs with modular isolation.

Analyze the impact of code changes by mapping call graphs and identifying all direct and indirect dependencies. Use when users ask about blast radius analysis, code change impact, who calls a function, downstream dependencies, or risk assessment before refactoring. Traces call chains, identifies high-risk modules, and provides ranked impact analysis.

Guidelines for Blazor development including component lifecycle, state management, and performance optimization

Blender 3D creation suite for modeling, animation, rendering, compositing, video editing, and game development. Use for 3D modeling, sculpting, animation, shading, rendering, simulation, video editing, and Python scripting.

Blind peer review for code - multiple agents critique independently, then synthesize privately to avoid groupthink