Preprocess CLIP-seq reads (eCLIP, iCLIP, iCLIP2, iCLIP3, irCLIP, PAR-CLIP, FLASH) with protocol-specific UMI extraction, adapter trimming, length filtering, and post-alignment…
Computes DNA methylation age (DNAm age) and pace of aging by applying frozen elastic-net epigenetic clocks to a clean beta matrix with methylclock, dnaMethyAge, or methyl — from…
Calculate sequence statistics (N50, length distribution, GC content, summary reports) using Biopython.
Multi-objective optimization framework. NSGA-II, NSGA-III, MOEA/D, Pareto fronts, constraint handling, benchmarks (ZDT, DTLZ), for engineering design and optimization pro — from…
Suite of tools for creating elaborate, multi-component claude.ai HTML artifacts using modern frontend web technologies (React, Tailwind CSS, shadcn/ui).
Generate AI images with FLUX, Gemini, Grok, Seedream, Reve and 50+ models via inference.sh CLI. Models: FLUX Dev LoRA, FLUX.2 Klein LoRA, Gemini 3 Pro Image, Grok Imagine — from…
Generate and edit images on RunComfy via the `runcomfy` CLI — a smart router across the full image-model catalog: FLUX 2 (Klein 9B/4B, Pro, Dev, Flash, Turbo, Max), Googl — from…
End-to-end TCR/BCR repertoire analysis from FASTQ to clonotype diversity metrics. Use when analyzing immune repertoire sequencing data from bulk or single-cell experiment — from…
Use when selecting and placing approved supporting icons, images, SVGs, diagrams, or infographics in an editable PPTX deck.
Redesign or QA PDFs for clarity while preserving IDs, dates, amounts, barcodes, QR codes, seals, signatures, labels, and meaning.
Browser automation for AI agents via inference.sh. Navigate web pages, interact with elements using @e refs, take screenshots, record video.
Vendor-agnostic lab automation framework. Use when controlling multiple equipment types (Hamilton, Tecan, Opentrons, plate readers, pumps) or needing unified programming — from…
Handles BED-format genomic intervals (BED3 through BED12, narrowPeak/broadPeak) and the coordinate-system substrate the whole interval category rests on, with bedtools (CLI) and…
Comprehensive antibody engineering and optimization for therapeutic development. Covers humanization, affinity maturation, developability assessment, and immunogenicity…
Bulk-query Ensembl BioMart (and other BioMart instances) for cross-database ID mapping, gene/transcript/exon coordinates, and ortholog tables.
Use when you need to run a binary, trace execution, or observe runtime behavior. Runtime analysis via QEMU emulation, GDB debugging, and Frida hooking - syscall tracing ( — from…
ChIP-seq quality control metrics including FRiP (Fraction of Reads in Peaks), cross-correlation analysis (NSC/RSC), library complexity, and IDR (Irreproducibility Discove — from…
Delimits putative species boundaries from molecular data within the de Queiroz 2007 unified-lineage framework using ASAP (Puillandre 2021 successor to ABGD), mPTP C++ (Kapli 2017…
Creates engaging content for blogs, social media, and marketing materials with audience focus. Use when: writing blog posts, creating social media content, developing marketing…
Similarity Network Fusion (SNF) for patient stratification using multi-omics data. Integrates multiple data types into a unified patient similarity network.
Comprehensive guide for Dependency-Track - Software Composition Analysis (SCA) and SBOM management platform.
Install strict Xcode Makefile tooling for iOS/macOS projects, including build/run/test scripts with AGENT_NAME-based per-agent isolation under build/.
Comprehensive fullstack development skill for building complete web applications with React, Next.js, Node.js, GraphQL, and PostgreSQL.
Manage ArgoCD Image Updater configuration, drift resolution, and ImageUpdater CRDs. USE WHEN argocd image updater, image update drift, ImageUpdater CRD, extraObjects helm,…
Create 3D data visualizations using Swift Charts. Use when the user wants to create a 3D chart, asks about Chart3D or SurfacePlot, needs interactive drag-to-rotate, or wants…
Materials science toolkit. Crystal structures (CIF, POSCAR), phase diagrams, band structure, DOS, Materials Project integration, format conversion, for computational mate — from…
Execute Python code in a safe sandboxed environment via [inference.sh](https://inference.sh). Pre-installed: NumPy, Pandas, Matplotlib, requests, BeautifulSoup, Selenium — from…
Performs time-to-event analysis for clinical trials including Cox proportional hazards regression with PH diagnostics, restricted mean survival time (RMST) under non-PH, competing…
Trim PCR primers from aligned reads in amplicon-panel BAMs using samtools ampliconclip. Use when processing SARS-CoV-2 ARTIC, hereditary cancer panels, ctDNA hot-spot panels, or…
When the user wants to add or optimize Open Graph metadata for social sharing. Also use when the user mentions "Open Graph," "og:tags," "og:title," "og:image," "og:description,"…
When the user wants to find information sources for content ideation, competitor monitoring, or industry tracking.
Use when you have a spec or requirements for a multi-step task, before touching code — from bg-szy/TOP-SKILLS
Authorization system with role-based access control. Must-have for all apps that manage personal or access-restricted data.
Query STRING API for protein-protein interactions (59M proteins, 20B interactions). Network analysis, GO/KEGG enrichment, interaction discovery, 5000+ species, for system — from…
Identify spatial domains and tissue regions in spatial transcriptomics data using Squidpy and Scanpy.
Perform V(D)J alignment and clonotype assembly from TCR-seq or BCR-seq data using MiXCR. Use when processing raw immune repertoire sequencing data to identify clonotypes — from…
AI-assisted pair programming with multiple modes (driver/navigator/switch), real-time verification, quality monitoring, and comprehensive testing.
Analyze drug safety signals from FDA adverse event reports, label warnings, and pharmacogenomic data.
Derive security requirements from threat models and business context. Use when translating threats into actionable requirements, creating security user stories, or buildi — from…
Quality metrics for IMC data including signal-to-noise, channel correlation, tissue integrity, and acquisition QC.
When the user wants to create, optimize, or audit customer stories or case study pages. Also use when the user mentions "case studies," "customer stories," "success stories,"…
Implement comprehensive testing strategies with pytest, fixtures, mocking, and test-driven development.
Analyze metabolite-mediated cell-cell communication using MeboCost for metabolic signaling inference between cell types.
Searches molecular libraries for substructure matches using SMARTS patterns with RDKit. Filters compounds by pharmacophore features, functional groups, or scaffold matche — from…
Advanced single-cell multi-omics analysis including scRNA-seq, scCITE-seq, scATAC-seq, and TARGET-seq.
Run 250+ AI apps via inference.sh CLI - image generation, video creation, LLMs, search, 3D, Twitter automation.
Use when writing, reviewing, citing, or implementing Diasporic Intelligence, a source-credited framework also described as Afrotemporalism in Action.
Normalize indel representation and split multiallelic variants using bcftools norm. Use when comparing variants from different callers or preparing VCF for downstream ana — from…
Differential abundance testing for microbiome data using compositionally-aware methods like ALDEx2, ANCOM-BC2, and MaAsLin2.
Dimensionality reduction and clustering for single-cell RNA-seq using Seurat (R) and Scanpy (Python).
Detect allele-specific chromatin accessibility from ATAC-seq using WASP, GATK ASEReadCounter, or RASQUAL.
Generate concise (3-4 page), focused medical treatment plans in LaTeX/PDF format for all clinical specialties.
Analyzes your recent Claude Code chat history to identify coding patterns, development gaps, and areas for improvement, curates relevant learning resources from HackerNew — from…
Use when you have a written implementation plan to execute in a separate session with review checkpoints — from bg-szy/TOP-SKILLS
Protein quantification from mass spectrometry data including label-free (LFQ, intensity-based), isobaric labeling (TMT, iTRAQ), and metabolic labeling (SILAC) approaches — from…
Quality control and normalization for metabolomics data. Covers QC-based correction, batch effect removal, and data transformation methods.
Generate AI videos with Google Veo, Seedance, Wan, Grok and 40+ models via inference.sh CLI. Models: Veo 3.1, Veo 3, Seedance 1.5 Pro, Wan 2.5, Grok Imagine Video, OmniHu — from…
Drive Chromium from standard Playwright APIs with a real-device fingerprint applied inside the browser kernel, one persistent isolated profile per identity, and a per-profile…
Use when you want to search for or download experimentally-determined 3D structures for biomolecules (proteins, nucleic acids, bound ligands).
Comprehensive guide for this Neovim configuration - a modular, performance-optimized Lua-based IDE. Use when configuring plugins, adding keybindings, setting up LSP servers,…