263 skills · sorted by relevance
Calculate alignment statistics including sequence identity, conservation scores, substitution matrices, and similarity metrics. Use when comparing alignment quality, measuring sequence divergence, and analyzing evolutionary patterns.
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Perform multiple sequence alignment using MAFFT, MUSCLE5, ClustalOmega, or T-Coffee. Guides tool and algorithm selection based on dataset size, sequence divergence, and downstream application. Use when aligning three or more homologous sequences for phylogenetics, conservation analysis, or evolutionary studies.
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AutoResearch-inspired self-evolution loop for ANY Claude Code skill. Finds flaws, fixes them, benchmarks against a diverse prompt pool (anti-overfitting), and uses blind A/B judging. Fully automated — no human input needed during the loop.
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Establish or audit an agent-operated repository's quality contract or recurring stewardship friction. Skip routine repairs with a known owner and native check. Use for charter/docs ownership, validation gates, evidence paths, maturity proof, consumer/producer boundaries, command-surface evolution, or a repo ecology pass to decide what should be compressed, merged, retired, or moved to checks.
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Use when long-lived agents, project memories, system prompts, or playbooks are repeatedly summarized, rewritten, or optimized and risk losing domain detail, provenance, or execution learnings.
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Run one iteration of VL-Harness evolution — evolve video-memory-harness code for long-video MCQ. Called by meta_harness.py or interactively via /vl-harness.
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Maintain and update the persistent project chronicle (docs/chronicle.md). Trigger when: - The human requests a history summary or chronicle update. - Starting work on a new codebase and needing context on its evolution. - Prompt contains keywords: /chronicle, chronicle, project history, git log summary, history summary.
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Solves complex, open-ended problems using a knockout tournament mechanism. Generates an initial population of diverse candidate answers, pairs them into head-to-head matches, produces a hybrid "child" solution from each pair, and advances the best of the three through a bracket until a winner emerges. Use this skill whenever the user wants to competitively select the best answer from a field of alternatives, asks for a "tournament" or "bracket" style search, wants a faster alternative to full evolutionary search, or uses phrases like: "run a tournament on this", "bracket-style search", "let solutions compete", "knockout search", "find the best answer by elimination", or "which solution wins?". Also trigger when the problem is open-ended and the user wants a clear winner quickly rather than a deep multi-generation refinement.
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Continuous environmental scanning across six PESTEL categories — Political, Economic, Social, Technological, Environmental, Legal. Not a one-time analysis but an ongoing radar. Three modes. Diagnostic mode runs a full scan and prioritises forces by impact, speed, and reversibility. Review mode checks the watch list monthly for movement and new signals. Alert mode defines concrete monitoring triggers for each top force. Use whenever someone wants to understand external forces acting on their business, assess macro risk, prepare for planning, or check whether the world has moved since last time they looked. Connects to the strategy map (forces act on the chain) and Wardley Map (forces drive component evolution). Based on practice by Eterdis (eterdis.com).
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Use the Malpedia platform and API to research malware family relationships, track variant evolution, link families to threat actors, and integrate YARA rules for detection across malware lineages.
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We find that the evolution of cooperation differs markedly across base models, with societies of Cla
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Use for Self-Rewriting Core: AST analyze, patch, commit.
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Use for the self-evolving civilization - skills, memories, swarm agents, energy economy, grid duels, metacognition. Run `python scripts/autonomous_loop.py --loop` from the repo root (or `darwin_engine.py --full` for skill evolution only).
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使用包装文件进行渐进式文件重命名。无缝重命名，防止硬性中断 — 引用会在日常使用中有机地自动更新。
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Эволюционное переименование файлов с помощью файлов-оберток. Позволяет переименовывать файлы без жестких сбоев — ссылки органично обновляются в процессе использования.
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ラッパーファイルを用いた段階的なファイル名変更。ハードブレイクのない名変更を実現 — 参照は使用を通じて自然に更新されます。
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Renombrado evolutivo de archivos con archivos wrapper. Permite renombrar sin rupturas drásticas — las referencias se actualizan orgánicamente mediante el uso.
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Incrementally studies git history across tagged or pattern-matched intervals (e.g., creation of planning artifacts like EXECUTION_PLAN_N.md, release tags, or milestone commits). Extracts commit diffs, file churn, and subsystem shifts to track feature evolution and architectural convergence, providing structured feeds for ADR distillation.
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Ensure event-driven designs specify delivery guarantees, ordering, idempotency, schema evolution, and replay/backfill strategy.
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Manage API versioning and evolution with URL/header/query strategies, deprecation workflows, breaking change classification, sunset headers, and consumer-driven contract testing. Use when designing versioning strategy, deprecating endpoints, or evolving API contracts.
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API + Python SDK for ordering cell-free protein expression and binding assays. Submit sequences for expression (10–100 µg), measure binding affinity (KD) against targets, track status, and retrieve results programmatically — no wet-lab setup. Built for ML-guided directed evolution and antibody/nanobody optimization. Requires Adaptyv account and API key.
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Database migration v3 — Flyway, Liquibase, zero-downtime, rollback, schema evolution, data migration
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Study how products evolve over time using archived versions. The decisions that survive redesigns are the taste decisions. Use when understanding what's essential vs. cosmetic in a design, or learning from product evolution.
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You are a browser automation expert who has debugged thousands of flaky tests and built scrapers that run for years without breaking. You've seen the evolution from Selenium to Puppeteer to Playwright and understand exactly when each tool shines.
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