Data & AI

UMAP dimensionality reduction. Fast nonlinear manifold learning for 2D/3D visualization, clustering preprocessing (HDBSCAN), supervised/parametric UMAP, for high-dimensional data.

Distributed computing for larger-than-RAM pandas/NumPy workflows. Use when you need to scale existing pandas/NumPy code beyond memory or across clusters. Best for parallel file processing, distributed ML, integration with existing pandas code. For out-of-core analytics on single machine use vaex; for in-memory speed use polars.

Comprehensive toolkit for protein language models including ESM3 (generative multimodal protein design across sequence, structure, and function) and ESM C (efficient protein embeddings and representations). Use this skill when working with protein sequences, structures, or function prediction; designing novel proteins; generating protein embeddings; performing inverse folding; or conducting protein engineering tasks. Supports both local model usage and cloud-based Forge API for scalable inference.

Generate comprehensive market research reports (50+ pages) in the style of top consulting firms (McKinsey, BCG, Gartner). Features professional LaTeX formatting, extensive visual generation with scientific-schematics and generate-image, deep integration with research-lookup for data gathering, and multi-framework strategic analysis including Porter's Five Forces, PESTLE, SWOT, TAM/SAM/SOM, and BCG Matrix.

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.

Perform AI-powered web searches with real-time information using Perplexity models via LiteLLM and OpenRouter. This skill should be used when conducting web searches for current information, finding recent scientific literature, getting grounded answers with source citations, or accessing information beyond the model knowledge cutoff. Provides access to multiple Perplexity models including Sonar Pro, Sonar Pro Search (advanced agentic search), and Sonar Reasoning Pro through a single OpenRouter API key.

Infer gene regulatory networks (GRNs) from gene expression data using scalable algorithms (GRNBoost2, GENIE3). Use when analyzing transcriptomics data (bulk RNA-seq, single-cell RNA-seq) to identify transcription factor-target gene relationships and regulatory interactions. Supports distributed computation for large-scale datasets.

Data structure for annotated matrices in single-cell analysis. Use when working with .h5ad files or integrating with the scverse ecosystem. This is the data format skill—for analysis workflows use scanpy; for probabilistic models use scvi-tools; for population-scale queries use cellxgene-census.

Access RCSB PDB for 3D protein/nucleic acid structures. Search by text/sequence/structure, download coordinates (PDB/mmCIF), retrieve metadata, for structural biology and drug discovery.

Look up current research information using Perplexity's Sonar Pro Search or Sonar Reasoning Pro models through OpenRouter. Automatically selects the best model based on query complexity. Search academic papers, recent studies, technical documentation, and general research information with citations.

Access COSMIC cancer mutation database. Query somatic mutations, Cancer Gene Census, mutational signatures, gene fusions, for cancer research and precision oncology. Requires authentication.

Use this skill when stuck in circular debugging, when solutions aren't working despite multiple attempts, or when the user expresses frustration with lack of progress. Bring in GPT-5 as a third-party consultant to provide fresh perspective on complex technical problems, architectural decisions, or multi-system debugging issues. Ideal when you've tried multiple approaches without success, when the problem involves obscure edge cases or novel challenges, or when a second expert opinion would help break through an impasse. Gather all context from the conversation so far and present it comprehensively to GPT-5.

Analyzes Claude Code usage patterns and provides comprehensive recommendations. Runs usage analysis, discovers GitHub community resources, suggests CLAUDE.md improvements, and fetches latest docs on-demand. Use when user wants to optimize their Claude Code workflow, create configurations (agents/skills/commands), or set up project documentation.

Transform brain dumps into polished blog posts in Nick Nisi's voice. Use when the user wants to write a blog post with scattered ideas, talking points, and conclusions that need organization into a cohesive narrative with Nick's conversational, authentic, and thoughtful tone.

This skill should be used when the user asks to "perform SMTP penetration testing", "enumerate email users", "test for open mail relays", "grab SMTP banners", "brute force email credentials", or "assess mail server security". It provides comprehensive techniques for testing SMTP server security.

This skill should be used when the user asks to "follow red team methodology", "perform bug bounty hunting", "automate reconnaissance", "hunt for XSS vulnerabilities", "enumerate subdomains", or needs security researcher techniques and tool configurations from top bug bounty hunters.

This skill should be used when the user asks to "search for exposed devices on the internet," "perform Shodan reconnaissance," "find vulnerable services using Shodan," "scan IP ranges with Shodan," or "discover IoT devices and open ports." It provides comprehensive guidance for using Shodan's search engine, CLI, and API for penetration testing reconnaissance.

This skill should be used when the user asks to "escalate privileges on Linux", "find privesc vectors on Linux systems", "exploit sudo misconfigurations", "abuse SUID binaries", "exploit cron jobs for root access", "enumerate Linux systems for privilege escalation", or "gain root access from low-privilege shell". It provides comprehensive techniques for identifying and exploiting privilege escalation paths on Linux systems.

This skill should be used when the user asks to "attack Active Directory", "exploit AD", "Kerberoasting", "DCSync", "pass-the-hash", "BloodHound enumeration", "Golden Ticket", "Silver Ticket", "AS-REP roasting", "NTLM relay", or needs guidance on Windows domain penetration testing.

This skill should be used when the user asks to "test for insecure direct object references," "find IDOR vulnerabilities," "exploit broken access control," "enumerate user IDs or object references," or "bypass authorization to access other users' data." It provides comprehensive guidance for detecting, exploiting, and remediating IDOR vulnerabilities in web applications.