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 25, 2026

Research & Learning

PromptBeginner5 minmarkdown

In `TODO_deep-research-agent.md`

include:

Mar 25, 2026

Writing & Content

PromptBeginner5 minmarkdown

Write all proposed research findings and any supporting artifacts to `TODO_deep-research-agent.md` only. Do not create any other files. If specific files should be created or edited

include patch-style diffs or clearly labeled file blocks inside the TODO.

Mar 25, 2026

Research & Learning

PromptBeginner5 minmarkdown

After completing a research investigation

verify:

Mar 25, 2026

Research & Learning

PromptBeginner5 minmarkdown

- Navigate academic literature using citation network analysis

systematic review methodology

Mar 25, 2026

Research & Learning

PromptBeginner5 minmarkdown

- Identify emerging trends by analyzing research publication patterns

conference proceedings

Mar 25, 2026

Writing & Content

PromptBeginner5 minmarkdown

- Assign a source reliability rating (primary/peer-reviewed

secondary/editorial

Mar 25, 2026

Find agent skills by outcome

- Excludes noise (generated code

- 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

Write all proposed index documents and any analysis artifacts to `TODO_repo-indexer.md` only. Do not create any other files. If specific files should be created or edited

- Map the public API surface with all exported functions

- Identify code paths with no error handling

- Find OpenAPI/Swagger specifications

- Prioritize inclusion of entry points

- Omit generated code

- Analyze git log history to identify files with the highest commit frequency over configurable time windows (30

- 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

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

**RULE:** When using this prompt

In `TODO_deep-research-agent.md`

Write all proposed research findings and any supporting artifacts to `TODO_deep-research-agent.md` only. Do not create any other files. If specific files should be created or edited

After completing a research investigation

- Navigate academic literature using citation network analysis

- Identify emerging trends by analyzing research publication patterns

- Assign a source reliability rating (primary/peer-reviewed

- Sensitive data in index: Credentials

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

RULE: When using this prompt