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Calls ChIP-seq peaks with MACS3, MACS2, HOMER, or SPP across narrow (TF) and broad (histone) modes. Handles input control matching, fragment-size modeling vs --nomodel, effective genome size, ENCODE-style IDR vs naive overlap, hyper-ChIPable artifacts, and aligner-specific shifts. Use when calling peaks from ChIP-seq alignments, choosing between narrow vs broad mode for a histone mark, deciding mo

Tests genotype-environment associations and identifies adaptive loci while correcting for the four-confound landscape (structure, demography, background selection, sampling design) using LFMM2 with mandatory K via sNMF cross-entropy elbow (LEA 3), BayPass Core/AUX/C2/IS with Omega covariance matrix, RDA / pRDA for polygenic adaptation (Forester 2018; requires imputed genotypes), OutFLANK with trim

Use this skill for requests related to LangGraph in order to fetch relevant documentation to provide accurate, up-to-date guidance.

<!-- --> Use CellTypeAgent to interpret marker genes, annotate scRNA-seq clusters, and coordinate multi-agent workflows for downstream a

Conducts multi-turn iterative deep research on specific topics within a codebase with zero tolerance for shallow analysis. Use when the user wants an in-depth investigation, needs to understand how something works across multiple files, or asks for comprehensive analysis of a specific system or pattern.

Write clear and helpful user guides and tutorials for end users. Use when creating onboarding docs, how-to guides, or FAQ pages. Handles user-focused documentation, screenshots, step-by-step instructions.

Laravel security best practices for authn/authz, validation, CSRF, mass assignment, file uploads, secrets, rate limiting, and secure deployment.

Write effective JSDoc comments for TypeScript code. Provides guidance on documentation format, strategic placement, best practices, and when to document versus when to keep code self-documenting. Helps maintain code clarity and IDE support.

Design homology-directed repair donor templates for CRISPR knock-ins using primer3-py. Create ssODN, dsDNA, or plasmid templates with optimized homology arms. Use when designing donor templates for precise insertions, tagging, or allele replacement.

Create interactive single-file HTML prototypes for UX validation. Use when the user asks to create a prototype, mockup, or interactive wireframe based on specs/architecture/ux.md or any UX specification. Triggers include requests like "create a prototype", "build a prototype from the UX spec", "make an interactive mockup", "prototype the user flow", or "validate the UX".

Forbid hardcoded values in code. Use this when reviewing code, writing new features, or when magic numbers/strings are detected. Enforces constants, env variables, and config files.

Automate Twitter/X with posting, engagement, and user management via inference.sh CLI. Apps: x/post-tweet, x/post-create (with media), x/post-like, x/post-retweet, x/dm-send, x/user-follow. Capabilities: post tweets, schedule content, like posts, retweet, send DMs, follow users, get profiles. Use for: social media automation, content scheduling, engagement bots, audience growth, X API. Triggers: t