Design

Guide Claude through omicverse's bulk RNA-seq DEG pipeline, from gene ID mapping and DESeq2 normalization to statistical testing, visualization, and pathway enrichment. Use when a user has bulk count matrices and needs differential expression analysis in omicverse.

Guide users through OmicVerse plotting utilities showcased in the bulk, color system, and single-cell visualization tutorials, including venn/volcano charts, palette selection, and advanced embedding layouts.

Guide Claude through omicverse's single-cell clustering workflow, covering preprocessing, QC, multimethod clustering, topic modeling, cNMF, and cross-batch integration as demonstrated in t_cluster.ipynb and t_single_batch.ipynb.

Guide to reproducing OmicVerse trajectory workflows spanning PAGA, Palantir, VIA, velocity coupling, and fate scoring notebooks.

Transforms research findings into executive-ready briefings. Automatically activated when user mentions 'executive', 'briefing', 'C-suite', 'board', 'leadership', or 'presentation'.

Help Claude query STRING for protein interactions, build PPI graphs with pyPPI, and render styled network figures for bulk gene lists.

Quick-reference sheet for OmicVerse tutorials spanning MOFA, GLUE pairing, SIMBA integration, TOSICA transfer, and StaVIA cartography.

Guide Claude through SCSA, MetaTiME, CellVote, CellMatch, GPTAnno, and weighted KNN transfer workflows for annotating single-cell modalities.

Guide users through omicverse's spatial transcriptomics tutorials covering preprocessing, deconvolution, and downstream modelling workflows across Visium, Visium HD, Stereo-seq, and Slide-seq datasets.

Expert Java developer skill for AgentScope Java framework - a reactive, message-driven multi-agent system built on Project Reactor. Use when working with reactive programming, LLM integration, agent orchestration, multi-agent systems, or when the user mentions AgentScope, ReActAgent, Mono/Flux, Project Reactor, or Java agent development. Specializes in non-blocking code, tool integration, hooks, pipelines, and production-ready agent applications.

Apply systematic performance optimization techniques for Python and Rust code: estimation + profiling, API/bulk design, algorithmic wins, cache-friendly memory layout, fewer allocations, fast paths, caching, and compiler-friendly hot loops. Use for performance code reviews, refactors, and profiling-driven optimizations. Keywords: performance, latency, throughput, cache, allocation, memory layout, PyO3, msgspec, tokio, async, pprof, py-spy, perf.

Use when you need to work with database indexing.This skill provides index design and optimization with comprehensive guidance and automation.Trigger with phrases like "create indexes", "optimize indexes",or "improve query performance".

Guide security incident response, investigation, and remediation processes.Use when you need to handle security breaches, classify incidents, develop response playbooks, gather forensic evidence, or coordinate remediation efforts.Trigger with phrases like "security incident response", "ransomware attack response", "data breach investigation", "incident playbook", or "security forensics".

Use when you need to work with monitoring and observability.This skill provides health monitoring and alerting with comprehensive guidance and automation.Trigger with phrases like "monitor system health", "set up alerts",or "track metrics".

Use when you need to work with deployment and CI/CD.This skill provides deployment automation and orchestration with comprehensive guidance and automation.Trigger with phrases like "deploy application", "create pipeline",or "automate deployment".

Track and manage regression test suites across releases.Use when performing specialized testing.Trigger with phrases like "track regressions", "manage regression suite", or "validate against baseline".

Build production Firebase Genkit applications including RAG systems, multi-step flows, and tool calling for Node.js/Python/Go. Deploy to Firebase Functions or Cloud Run with AI monitoring. Use when asked to "create genkit flow" or "implement RAG". Trigger with relevant phrases based on skill purpose.

Use when you need to work with compliance checking.This skill provides compliance monitoring and validation with comprehensive guidance and automation.Trigger with phrases like "check compliance", "validate policies",or "audit compliance".

Automatically detect performance regressions in CI/CD pipelines by comparing metrics against baselines. Use when validating builds or analyzing performance trends. Trigger with phrases like "detect performance regression", "compare performance metrics", or "analyze performance degradation".

Execute end-to-end tests covering full user workflows across frontend and backend.Use when performing specialized testing.Trigger with phrases like "run end-to-end tests", "test user flows", or "execute E2E suite".