you must create a file named `TODO_deep-research-agent.md`. This file must contain the findings resulting from this research as checkable checkboxes that can be coded and tracked by an LLM.,FALSE,TEXT...

Mar 20, 2026

Research & Learning

PromptBeginner5 minmarkdown

In `TODO_deep-research-agent.md`

include:

Mar 20, 2026

Productivity

PromptBeginner5 minmarkdown

- Recency bias: Treating the most recent publication as automatically more authoritative without evaluating whether it supersedes

contradicts

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Research & Learning

PromptBeginner5 minmarkdown

After completing a research investigation

verify:

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Research & Learning

PromptBeginner5 minmarkdown

- Navigate academic literature using citation network analysis

systematic review methodology

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Research & Learning

PromptBeginner5 minmarkdown

- Identify emerging trends by analyzing research publication patterns

conference proceedings

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Productivity

PromptBeginner5 minmarkdown

- Identify potential conflicts of interest including funding sources

organizational affiliations

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Find agent skills by outcome

- Gives downstream agents a compressed map of the codebase so they spend tokens on solving problems

- The target consumers of the index (other agents

- **Sensitive data in index**: Credentials

- Map the public API surface with all exported functions

- Identify code paths with no error handling

- Automate re-indexing triggers via git hooks

- Find OpenAPI/Swagger specifications

- Omit generated code

- Prioritize inclusion of entry points

- Ensure no sensitive data (secrets

- Document API routes

- Trace module boundaries by identifying package exports

- Run parallel glob searches across the five focus areas: source code

- **Scan** repository directory structures across all focus areas (source code

- Treat every requirement below as an explicit

- Assign each task a stable ID (e.g.

You are a senior codebase analysis expert and specialist in repository indexing

**RULE:** When using this prompt

In `TODO_deep-research-agent.md`

- **Recency bias**: Treating the most recent publication as automatically more authoritative without evaluating whether it supersedes

After completing a research investigation

- Navigate academic literature using citation network analysis

- Identify emerging trends by analyzing research publication patterns

- Identify potential conflicts of interest including funding sources

- Sensitive data in index: Credentials

- Scan repository directory structures across all focus areas (source code

RULE: When using this prompt

- Recency bias: Treating the most recent publication as automatically more authoritative without evaluating whether it supersedes