ChIPseq-QC
Performs ChIP-specific biological validation. It calculates metrics unique to protein-binding assays, such as Cross-correlation (NSC/RSC) and FRiP. Use this when you have filtered the BAM file and called peaks for ChIP-seq data. Do NOT use this skill for ATAC-seq data or general alignment statistics.
domain-name-brainstormer
Brainstorms creative domain names for projects and checks availability across common TLDs (.com, .ai, .dev, .io, .app). Saves hours of manual searching. Use when starting a new project and need a domain name, or when rebranding existing projects.
optimize
Optimize your SaaS app across four dimensions - Speed (page load, API response), Code (unused files, dead code), Database (orphaned data, schema hygiene), and Dependencies (package bloat, bundle size). Use when app feels slow, codebase feels bloated, or after significant development work accumulates. Each path follows AUDIT → CLEAN → PREVENT workflow.
reset
Reset after failures, blockers, or when stuck. Use when execution hits a wall, something breaks, or we need to step back and reassess. This is the fifth system in the 5-system framework.
5-styleguide-generation
Fifth step in building instruction context for codebase
50-execute-gated-150
[50] EXECUTE. Execute plans step-by-step with confirmation gates. Each step requires user approval before proceeding. Includes change management lifecycle (Pre-Change → During → Post-Change → Rollback). Use when implementing approved plans, deploying changes, or any multi-step execution requiring control and reversibility.
51-execute-quality-150
[51] EXECUTE. Commitment to maximum quality work with 150% coverage. Use when you need the highest quality output for critical tasks, complex problems, important decisions, or when standard work isn't enough. Triggers on \"maximum quality\", \"150% mode\", \"full quality\", \"critical task\", or when you explicitly want AI to work at its best.
canvas-design
Create beautiful visual art in .png and .pdf documents using design philosophy. You should use this skill when the user asks to create a poster, piece of art, design, or other static piece. Create original visual designs, never copying existing artists' work to avoid copyright violations.
52-execute-refactor-150
[52] EXECUTE. Three-stage refactoring workflow: (1) iterative research of refactor/modularization options, (2) plan + risk/edge-case analysis + Scope150 validation, then implement with tests after user confirmation, and (3) apply Scout105 cleanup protocol. Use when asked to refactor, modularize, or restructure code safely.
ab-testing
Use when designing experiments for subject lines, offers, cadences, or
obsidian-bases
Create and edit Obsidian Bases (.base files) with views, filters, formulas, and summaries. Use when working with .base files, creating database-like views of notes, or when the user mentions Bases, table views, card views, filters, or formulas in Obsidian.
playwright-skill
Complete browser automation with Playwright. Auto-detects dev servers, writes clean test scripts to /tmp. Test pages, fill forms, take screenshots, check responsive design, validate UX, test login flows, check links, automate any browser task. Use when user wants to test websites, automate browser interactions, validate web functionality, or perform any browser-based testing.
youtube-downloader
Download YouTube videos with customizable quality and format options. Use this skill when the user asks to download, save, or grab YouTube videos. Supports various quality settings (best, 1080p, 720p, 480p, 360p), multiple formats (mp4, webm, mkv), and audio-only downloads as MP3.
5w1h-decision
5W1H Decision Framework Tool. Use for: (1) Systematic decision-making before creating todos, (2) Preventing duplicate implementation, (3) Detecting avoidance behavior, (4) Ensuring agile refactor compliance with executor/dispatcher separation
5whys
Five Whys root cause analysis. Iteratively asks "why" to drill past symptoms to underlying causes. Use for debugging, investigating failures, or understanding why something went wrong.
6-build-instructions
Final step in building instruction context for codebase
stripe-integration
Guides consistent, correct implementation of Stripe payment processing including payment flows, webhooks, subscriptions, and customer management. Use when integrating Stripe payments, setting up subscriptions, implementing webhooks, or managing customer billing.
test
Test features before users find bugs. Use when feature is built, before deploying, or when bugs reported. Covers manual testing, edge cases, cross-browser testing, and testing checklists for non-technical founders.
track-generation
This skill generates normalized BigWig (.bw) tracks (and/or fold-change tracks) from BAM files for ATAC-seq and ChIP-seq visualization. It handles normalization (RPM or fold-change) and Tn5 offset correction automatically. What's more, this skill can help user visualize the signal profiles around TSS or target regions. Use this skill when you have filtered and generated the clean BAM file (e.g. `*.filtered.bam`).
60-validate-tests-150
[60] VALIDATE. Ensure new (staged and unstaged) changes are covered by tests at >70% and the full test suite is green. Use when asked to validate coverage for recent changes, add tests for modified code, or verify nothing else broke.
61-validate-lint-150
[61] VALIDATE. Comprehensive code quality check combining ESLint, TypeScript compilation, and unused code detection. Runs full lint suite with detailed error reporting and fix suggestions. Use before commits, after major changes, or when ensuring code quality standards.
62-validate-integrity-150
[62] VALIDATE. Final self-check before delivery. Verify goal alignment, completeness, correctness, and identify residual risks. Produces quality score (0-100) and delivery status. Use when completing any significant work, before handoff, or when you need confidence that work is ready.
debug
Fix bugs systematically instead of guessing. Use when features break, users report errors, or tests fail. Covers reproducing bugs, gathering diagnostic info, and working with AI tools to fix issues efficiently for non-technical founders.
replicates-incorporation
This skill manages experimental reproducibility, pooling, and consensus strategies. This skill operates in two distinct modes based on the input state. (1) Pre-Peak Calling (BAM Mode): It merges all BAMs, generate the merge BAM file to prepare for track generation and (if provided with >3 biological replicates) splits them into 2 balanced "pseudo-replicates" to prepare for peak calling. (2) Post-Peak Calling (Peak Mode): If provided with peak files (only support two replicates, derived from either 2 true replicates or 2 pseudo-replicates), it performs IDR (Irreproducible Discovery Rate) analysis, filters non-reproducible peaks, and generates a final "conservative" or "optimal" consensus peak set. Trigger this skill when you need to handle more than two replicates (creating pseudo-reps) OR when you need to merge peak lists.
70-close-task-150
[70] CLOSE. Manage task lifecycle with correct statuses and no duplicates. Ensure each task has one status, artifacts match claims, and no task appears in multiple places. Use when managing task lists, updating progress, or ensuring task tracking integrity across systems.
71-close-tidy-150
[71] CLOSE. Quick, safe cleanup after completing a milestone. Fix objective issues only (syntax errors, dead code, poor naming). Must be <5% of main task time, <30 seconds per fix, and reversible. Use after key points, not after every small change.
72-close-session-150
[72] CLOSE. Save and restore session context between conversations. Use when ending a session to preserve progress, or starting a new session to restore context. Triggers on \"save session\", \"end session\", \"preserve context\", \"handoff\", \"continue from last time\", or when context window is running low.
json-canvas
Create and edit JSON Canvas files (.canvas) with nodes, edges, groups, and connections. Use when working with .canvas files, creating visual canvases, mind maps, flowcharts, or when the user mentions Canvas files in Obsidian.
73-close-lessons-learn-150
[73] CLOSE. Record and maintain Lessons in MEMORY.md after a problem is solved or the user confirms success. Use when capturing a new lesson, moving lessons through the pipeline, or enhancing Project Architecture Quick Reference with new insights.
74-mid-session-save-150
[74] CLOSE. Quick checkpoint during active work when context is running low. Use multiple times per development cycle to preserve progress and lessons. Lighter than close-session — no full handoff needed. Triggers on 'save progress', 'checkpoint', 'context low', or automatically when nearing token limits.
brand-guidelines
Applies Anthropic's official brand colors and typography to any sort of artifact that may benefit from having Anthropic's look-and-feel. Use it when brand colors or style guidelines, visual formatting, or company design standards apply.
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.
ios-simulator-skill
21 production-ready scripts for iOS app testing, building, and automation. Provides semantic UI navigation, build automation, accessibility testing, and simulator lifecycle management. Optimized for AI agents with minimal token output.
8-bit-pixel-art-patterns
Create pixelated borders, shadows, and effects for 8-bit retro components. Apply when building 8-bit styled UI components that need authentic pixel art aesthetics.
differential-region-analysis
The differential-region-analysis pipeline identifies genomic regions exhibiting significant differences in signal intensity between experimental conditions using a count-based framework and DESeq2. It supports detection of both differentially accessible regions (DARs) from open-chromatin assays (e.g., ATAC-seq, DNase-seq) and differential transcription factor (TF) binding regions from TF-centric assays (e.g., ChIP-seq, CUT&RUN, CUT&Tag). The pipeline can start from aligned BAM files or a precomputed count matrix and is suitable whenever genomic signal can be summarized as read counts per region.
monitor
Track production app health and catch issues before users complain. Use after deploying, to check app status, or when investigating user reports. Covers error tracking, uptime monitoring, and metrics for non-technical founders.
internal-comms
A set of resources to help me write all kinds of internal communications, using the formats that my company likes to use. Claude should use this skill whenever asked to write some sort of internal communications (status reports, leadership updates, 3P updates, company newsletters, FAQs, incident reports, project updates, etc.).
image-enhancer
Improves the quality of images, especially screenshots, by enhancing resolution, sharpness, and clarity. Perfect for preparing images for presentations, documentation, or social media posts.
8claw
8claw is an anonymous imageboard built for AI agents. Have discussions with other AI agents anonymously.
web-asset-generator
Generate web assets including favicons, app icons (PWA), and social media meta images (Open Graph) for Facebook, Twitter, WhatsApp, and LinkedIn. Use when users need icons, favicons, social sharing images, or Open Graph images from logos or text slogans. Handles image resizing, text-to-image generation, and provides proper HTML meta tags.
TF-differential-binding
The TF-differential-binding pipeline performs differential transcription factor (TF) binding analysis from ChIP-seq datasets (TF peaks) using the DiffBind package in R. It identifies genomic regions where TF binding intensity significantly differs between experimental conditions (e.g., treatment vs. control, mutant vs. wild-type). Use the TF-differential-binding pipeline when you need to analyze the different function of the same TF across two or more biological conditions, cell types, or treatments using ChIP-seq data or TF binding peaks. This pipeline is ideal for studying regulatory mechanisms that underlie transcriptional differences or epigenetic responses to perturbations.
doc-coauthoring
Guide users through a structured workflow for co-authoring documentation. Use when user wants to write documentation, proposals, technical specs, decision docs, or similar structured content. This workflow helps users efficiently transfer context, refine content through iteration, and verify the doc works for readers. Trigger when user mentions writing docs, creating proposals, drafting specs, or similar documentation tasks.
user-customization
指导用户如何自定义 Trae Skills 的配置，包括覆盖角色设定、调整技术偏好和定义全局规则。
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.
9d-framework
9D product development framework
AIMDS
AI Manipulation Defense System implementation with Midstream, AgentDB, and lean-agentic
AgentObservability
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alex-hormozi-pitch
Create irresistible offers and pitches using Alex Hormozi's methodology from $100M Offers. Guides through value equation, guarantee frameworks, pricing psychology, and creating offers "too good not to take" for any product or service.
AnnualReports
Annual security report aggregation and analysis. USE WHEN annual reports, security reports, threat reports, industry reports, update reports, analyze reports, vendor reports, threat landscape.
Aphorisms
Aphorism management. USE WHEN aphorism, quote, saying. SkillSearch('aphorisms') for docs.
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