AI-powered adeno-associated virus (AAV) vector design for gene therapy including capsid engineering, promoter selection, and tropism optimization.
日本語の概要は準備中です。原文の説明を表示しています。
Understand how ideas evolved over time to find old solutions for new problems and avoid repeating past failures
インストールする前に、エージェントに与えられる指示の中身を確認できます。
Ideas have history. Understanding why we arrived at current approaches - and what was tried before - prevents repeating failures and rediscovers abandoned solutions.
Core principle: Before judging current approaches or proposing "new" ones, trace their lineage.
Trace before:
Red flags triggering lineage tracing:
Search for when/why current approach was chosen:
docs/decisions/, docs/adr/, .decisions/, architecture decision records)git log --all --full-history -- path/to/file)Document:
## Lineage: [Current Approach]
**When adopted:** [Date/commit]
**Why adopted:** [Original problem it solved]
**What it replaced:** [Previous approach]
**Why replaced:** [What was wrong with old approach]
**Context that drove change:** [External factors, new requirements]
When someone says "we tried X and it didn't work":
Don't assume: X is fundamentally flawed Instead trace:
Document:
## Failed Attempt: [Approach]
**When attempted:** [Timeframe]
**Why attempted:** [Original motivation]
**What failed:** [Specific failure mode]
**Why it failed:** [Root cause, not symptoms]
**Context at time:** [Constraints that existed then]
**Context now:** [What's different today]
**Worth reconsidering?:** [Yes/No + reasoning]
When evaluating "new" approaches:
Common revival patterns:
Ask: "What did we learn from the previous incarnation?"
When major architectural changes occurred:
Map the transition:
## Paradigm Shift: From [Old] to [New]
**Pre-shift thinking:** [How we thought about problem]
**Catalyst:** [What triggered the shift]
**Post-shift thinking:** [How we think now]
**What was gained:** [New capabilities]
**What was lost:** [Old capabilities sacrificed]
**Lessons preserved:** [What we kept from old paradigm]
**Lessons forgotten:** [What we might need to relearn]
Where to look for lineage:
docs/decisions/, docs/adr/, .adr/, or search for "ADR", "decision record")git log --grep="keyword", git blame)git log -- docs/)Search patterns:
# Find when approach was introduced
git log --all --grep="introduce.*caching"
# Find what file replaced
git log --diff-filter=D --summary | grep pattern
# Find discussion of abandoned approach
git log --all --grep="remove.*websocket"
All of these mean: STOP. Trace the lineage first.
You CAN ignore lineage when:
Context fundamentally changed
We learned critical lessons
Original reasoning was flawed
But document WHY you're overriding: Future you needs to know this was deliberate, not ignorant.
When proposing changes, include lineage:
## Proposal: Switch from [Old] to [New]
### Current Approach Lineage
- **Adopted:** [When/why]
- **Replaced:** [What it replaced]
- **Worked because:** [Its strengths]
- **Struggling because:** [Current problems]
### Previous Attempts at [New]
- **Attempted:** [When, if ever]
- **Failed because:** [Why it didn't work then]
- **Context change:** [What's different now]
### Decision
[Proceed/Defer/Abandon] because [reasoning with historical context]
"We used XML before JSON. XML died because verbosity hurt developer experience. But XML namespaces solved a real problem. If we hit namespace conflicts in JSON, we should study how XML solved it, not reinvent."
"REST is old, let's use GraphQL." (Ignores: Why did REST win over SOAP? What problems does it solve well? Are those problems gone?)
"We tried client-side routing in 2010, abandoned it due to poor browser support. Now that support is universal and we have better tools, worth reconsidering with lessons learned."
This skill is written to stay usable across GitHub Copilot, Claude Code, and Codex.
$CODEX_HOME/skills/tracing-knowledge-lineages and restart Codex after major changes.Preferred MCP Server: None required
tracing-knowledge-lineages outside its documented task boundary.Before claiming the tracing-knowledge-lineages workflow succeeded:
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概要と使いどころ
AI-powered adeno-associated virus (AAV) vector design for gene therapy including capsid engineering, promoter selection, and tropism optimization.
日本語の概要は準備中です。原文の説明を表示しています。
Improve the clarity and voice of AI-assisted academic writing (papers, theses, rebuttals) and
日本語の概要は準備中です。原文の説明を表示しています。
12-agent academic paper writing pipeline. 11 modes (full/plan/outline/revision/revision-coach/abstract/lit-review/format-convert/citation-check/disclosure/rebuttal-audit). 6 paper types, 5 citation formats, bilingual abstracts, LaTeX/DOCX-via-Pandoc/PDF output. Style Calibration + Writing Quality Check + Anti-Patterns with IRON RULE markers. Triggers: write paper, academic paper, guide my paper, parse reviews, audit my rebuttal, check my response draft, AI disclosure, 寫論文, 學術論文, 引導我寫論文, 審查意見, 評估回覆, 논문 작성, 초록 작성, 논문 수정, 논문 계획을 도와줘, 심사 의견 반영, 답변서 점검, AI 사용 고지.
日本語の概要は準備中です。原文の説明を表示しています。
Systematic writing framework for philosophy and interdisciplinary academic papers from optimized outline to submission-ready manuscript. Use when users want to: (1) write a paper from a detailed outline, (2) ensure quality control during writing, (3) maintain consistency across chapters, (4) prepare a submission-ready manuscript, or (5) systematically execute a planned paper. Triggered by phrases like 'write the paper from this outline,' 'compose the full manuscript,' 'execute the outline,' or when users have completed strategic planning (academic-paper-strategist skill) and are ready to write. Takes optimized outline as input; outputs complete manuscript with iterative quality checks.
日本語の概要は準備中です。原文の説明を表示しています。
Multi-perspective academic paper review with dynamic reviewer personas. Runs a 5-seat, role-separated review panel (Journal-Fit Reviewer + 3 peer-review roles + Devil's Advocate) with field-specific expertise; role separation is not a claim of independent error processes. Supports full review, re-review (verification), quick assessment, methodology focus, Socratic guided, and calibration modes. Triggers on: review paper, peer review, manuscript review, referee report, review my paper, critique paper, simulate review, editorial review, calibrate reviewer, reviewer calibration, measure reviewer accuracy, 審查論文, 論文審查, 模擬審查, 同儕審查, 幫我審這篇, 以審查人角度評估, 審查者校準, 논문 심사, 동료 심사, 모의 심사, 심사자 관점에서 평가, 심사자 보정.
日本語の概要は準備中です。原文の説明を表示しています。
Systematic strategic planning framework for philosophy and interdisciplinary academic papers targeting preprint platforms (PhilArchive, arXiv, PhilSci-Archive). Use when users want to: (1) plan a paper on a specific topic, (2) identify research gaps and assess originality, (3) develop optimized paper outlines, (4) prepare for preprint submission, or (5) understand platform requirements and writing standards. Triggered by phrases like 'plan a paper on,' 'help me design a paper about,' 'identify research gaps in,' 'is this idea original,' or when users need structured research planning. The skill guides through three phases: Platform Analysis (identifying target venue and studying sample papers), Theoretical Framework (AI-driven literature search and gap identification), and Outline Optimization (structured design with reviewer-perspective self-assessment). Each phase includes quality evaluation standards and validation checkpoints.
日本語の概要は準備中です。原文の説明を表示しています。