Retrieves gene expression and omics datasets from ArrayExpress and BioStudies with gene disambiguation, experiment quality assessment, and structured reports. Creates comprehensive dataset profiles with metadata, sample information, and download links. Use when users need expression data, omics datasets, or mention ArrayExpress (E-MTAB, E-GEOD) or BioStudies (S-BSST) accessions.

Production-ready genomics and epigenomics data processing for BixBench questions. Handles methylation array analysis (CpG filtering, differential methylation, age-related CpG detection, chromosome-level density), ChIP-seq peak analysis (peak calling, motif enrichment, coverage stats), ATAC-seq chromatin accessibility, multi-omics integration (expression + methylation correlation), and genome-wide statistics. Pure Python computation (pandas, scipy, numpy, pysam, statsmodels) plus ToolUniverse annotation tools (Ensembl, ENCODE, SCREEN, JASPAR, ReMap, RegulomeDB, ChIPAtlas). Supports BED, BigWig, methylation beta-value matrices, Illumina manifest files, and multi-sample clinical data. Use when processing methylation data, ChIP-seq peaks, ATAC-seq signals, or answering questions about CpG sites, differential methylation, chromatin accessibility, histone marks, or epigenomic statistics.

Comprehensive CRISPR screen analysis for functional genomics. Analyze pooled or arrayed CRISPR screens (knockout, activation, interference) to identify essential genes, synthetic lethal interactions, and drug targets. Perform sgRNA count processing, gene-level scoring (MAGeCK, BAGEL), quality control, pathway enrichment, and drug target prioritization. Use for CRISPR screen analysis, gene essentiality studies, synthetic lethality detection, functional genomics, drug target validation, or identifying genetic vulnerabilities.

Genomic file toolkit. Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences, extract regions, calculate coverage, for NGS data processing pipelines.

Electronic lab notebook API integration. Access notebooks, manage entries/attachments, backup notebooks, integrate with Protocols.io/Jupyter/REDCap, for programmatic ELN workflows.

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.

Use when the user wants to reverse-engineer an existing image ad into a reusable prompt template. Validates via Arcads — picks gpt-image-2 or Nano Banana at Phase 1. Triggers on "clone this ad as a template", "reverse engineer this ad", "turn this ad into a prompt", "extract a template", "make this ad reusable", "add to my prompt library", "study this ad and make a template". Input is an EXISTING ad image; does NOT trigger for fresh generation (use chatgpt-image-ad or nano-banana-image-ad).

Generate high-CTR YouTube thumbnails using Nano Banana 2 via the Arcads external API. Handles reference image upload, character likeness alignment, proven CTR-tested prompt formulas, and parallel batch generation. Use when the user asks to create a YouTube thumbnail, video thumbnail, A/B test thumbnail variations, or refers to thumbnail design with their face, brand assets, or product photos.

Generate one or more standalone Meta image-ad creatives via ChatGPT Image 2 (gpt-image-2) through the Arcads external API. Locks the model, auto-strips platform chrome, enforces edge-safe layouts and glyph-safety inside body text. Use when the user asks for a "gpt-image-2 ad", "ChatGPT Image ad", "Image 2 ad creative", "make a static image ad with GPT", or anchors on a need for typography-heavy / dense-text / UI-mimicry ad creatives (chat threads, comparison tables, fake search results, iOS dialogs, Slack snapshots, ChatGPT-conversation ads, Apple Notes lists). Does NOT trigger on Nano Banana cues — use nano-banana-image-ad for those.

Clone an existing video ad for a different product or offer. Analyzes the source video's style, pacing, camera work, dialogue, and tone, then adapts and generates a new Seedance 2.0 video customized for the user's product. End-to-end workflow: input video → analysis → adapted prompt → generation → delivery. Use when someone says "clone this ad", "make this ad but for my product", "recreate this video for my brand", or provides a video ad and a product image asking for a similar video.

Creates and retrieves AI video and image-related assets via the Arcads external API (Seedance 2.0, Sora 2, Veo 3.1, Kling, Grok Video, Nano Banana, b-roll, scene, script/actor flows). Loads prompts from the bundled prompting guide and model library, respects HTTP Basic auth from ARCADS_API_KEY, and polls assets/videos until ready. Use when the user mentions Arcads, external-api.arcads.ai, Seedance, Sora2, Veo, Kling, Nano Banana, b-roll, UGC scripts, or generating marketing creative through Arcads.

Publish finished creatives as live Meta (Facebook/Instagram) ads via the Meta Marketing API, plus research and ad-copy support. Uploads an image or video, builds a multi-variant TEXT_LIQUIDITY creative, and creates a PAUSED ad in an existing ad set. Also pulls top-performing ads (ranked by ROAS) and competitor ads from the Ad Library to inform copy. Use when the user asks to deploy / publish / launch a creative as a Meta or Facebook ad, build a Meta ad, push a video or image into an ad set, pull their top ads, or research competitor ads. Not for generating creative (use the image/video skills) and not for writing AdTable/Airtable rows (use adtable-light).

Interactive quiz tutor for Obsidian StudyVault learning. Use when the user wants to: (1) Take a diagnostic assessment of their knowledge, (2) Study or review specific sections/topics, (3) Drill weak areas identified in previous sessions, (4) Check their learning progress or dashboard, or says things like "quiz me", "test me", "let's study", "/tutor", "학습", "퀴즈", "평가".

Transforms knowledge sources into an Obsidian StudyVault. Two modes: (1) Document Mode — PDF/text/web sources → study notes with practice questions. (2) Codebase Mode — source code project → onboarding vault for new developers. Mode is auto-detected based on project markers in CWD.

Create animated flow diagrams from articles, workflow notes, architecture sketches, or process descriptions using a JSON specification and a local Python/Pillow renderer. Use when the user wants to turn source material into a static PNG + animated GIF diagram.

Set a repo up to prove engineering-task work actually works before it ships. Investigates the repo, ensures a one-command dev stack (`dev-local`) exists, asks whether verification runs locally or in a sandbox (crabbox), confirms/installs the driver (the `playwright-cli` skill for web by default). Outputs three artifacts: a committed `/verify` skill (per-task verification SOP — spawn a verifier sub-agent → drive the app → screenshot/video proof → open a PR with the proof embedded), the `/dev-local` skill + script, and the installed driver skill. Use when someone says "set up verification", "make this repo verifiable", "scaffold a verify skill", "set up the verifier".

Master skill — set up the full agent harness for any repo so an agent can work it reliably: legible (map-not-manual docs + custom lints), executable (one-command dev stack), verifiable (e2e gate + a verify-before-ship loop), plus commit hygiene and entropy control. Use when onboarding a new/unfamiliar codebase to agent-driven development — "set up the harness", "make this repo agent-ready", "harness this codebase".

Use when deciding WHERE to point SEO effort, not how to write a page. Triggers: a new site or brand with no rankings and no authority ("cold start", "starting from zero", "nobody knows us"), deciding what to double down on, a page or cluster that ranks but earns nothing, hunting emerging or newly-coined keywords before competitors arrive, "should we build a cluster or one page", "what do we write next", "we get impressions but no clicks", "our traffic plateaued despite publishing", whether to chase a head term at all, or turning any of it into recurring automation. Also use when asked why an SEO effort stalled despite consistent output. NOT for writing an article, keyword expansion mechanics, or auditing a single tactic for penalty risk.

Delegate tasks to ANY CLI agent (claude, codex, aider, ...) running in a detached tmux session, with a race-safe done-signal protocol and multi-turn iteration. Use when delegating work to a non-Claude CLI agent, when the user says "tmux delegate", "run agent in tmux", "delegate to codex/aider", or when executor work should run in an observable background terminal instead of the Agent tool.

Spin up a new loop (domain) in a file-based knowledge base — bootstrap the substrate if it's missing, gather the loop's charter, scaffold domains/<loop>/README.md, then do ONE real test run and record it in the loop's Timeline and LOG.md. Use when the user says "set up a new loop", "create a domain", "start a new beat/workstream", or names a recurring job they want the agent to own.