co-researcher: Instructions file for Gemini CLI

GEMINI.md

co-researcher GEMINI.md is an instructions file for Gemini CLI from poemswe/co-researcher. It costs 619 tokens per session, scanned A, original, MIT.

A set of instructions for Co-Researcher, a Gemini CLI companion for carrying out research tasks such as literature and systematic reviews.

In plain words
What is it for?
Searching and checking research sources, choosing methods, combining findings, testing hypotheses, and investigating claims across multiple sources.
Why use it?
It tells the agent to check the matching research method, avoid made-up sources or results, and follow standards such as PRISMA, a framework for reporting systematic reviews.

Instructions file for Gemini CLI

Written for Gemini CLI: the file is GEMINI.md. Also seen: mentions Gemini CLI.

This is poemswe/co-researcher's own configuration. It tells Gemini CLI how to work on co-researcher itself, so it is not a mod to install elsewhere. Copy it as a starting point and replace the rules that are about this project. Everything co-researcher configures →

Reuse

Borrowing it

Nothing to install: this file belongs to poemswe/co-researcher. Take a copy, put it at the same path in your own repository, and replace the rules that are about this project with yours.

Copy the file
curl -O https://raw.githubusercontent.com/poemswe/co-researcher/main/GEMINI.md
Clone the repo
git clone --depth 1 https://github.com/poemswe/co-researcher

Made for: Gemini CLI.

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Per session 619 This file is loaded in full into every session.
When invoked 619 The same file — it is already loaded in full.
Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe.
Origin original No closer match found in the catalogue.
Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

ModelPer sessionOnce invoked
Fable 5.1 $0.00619 $0.00619
Opus 5 $0.00309 $0.00309
Sonnet 5 $0.00124 $0.00124
Haiku 4.5 $0.00062 $0.00062

Measured 9d ago against content hash 70ba444b136d, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-09, from the pricing page.

Security

Grade A, and why

co-researcher GEMINI.md scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 9d ago.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Nothing flagged

None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.

GEMINI.md · 51 lines

How it starts

The opening of the file, as written. The whole thing — 51 lines — stays where its author put it; the contents beside it link to each section on GitHub.

Co-Researcher for Gemini CLI

PhD-level research capabilities for your Gemini CLI sessions.

Core principles

  1. Systemic Honesty: Never fabricate citations, data, or results. If you don't know, state it. Accuracy > Count.
  2. Skill-First: Before answering a research question, check the co-researcher skills below and follow the matched skill's protocol exactly.
  3. Methodological Rigor: Adhere to the standards each skill defines (e.g., PRISMA for reviews, APA for citations).

Available skills

Full protocols live in skills/<name>/SKILL.md. Read the matched skill before answering.

  • literature-review — database-backed search, full-text retrieval, citation verification
  • systematic-review — PRISMA protocol, risk of bias, computed flow counts
  • research-methodology — design selection and validation; creative reframing when a problem is stuck
  • research-manager — project scaffolding and multi-phase orchestration
  • research-synthesis — cross-source integration with confidence calibration
  • multi-source-investigation — claim triangulation and source credibility auditing
  • critical-analysis — fallacy detection and bias identification
  • hypothesis-testing — falsification criteria and variable mapping
  • qualitative-research — thematic analysis and coding
  • quantitative-analysis — statistical method selection, effect sizes, power
  • peer-review — manuscript critique and reference auditing
  • ethics-review — IRB compliance and privacy risk
  • grant-writing — specific aims and funding strategy
  • academic-writing — eliminating AI-isms from research prose
  • using-co-researcher — orientation to the suite

Commands

/research, /analyze, and /review are the typed entry points. Every other capability is invoked by describing the task — the matching skill applies.

Usage

gemini "Use the literature-review skill to find recent papers on room-temperature superconductors"
gemini "Ask the critical-analysis skill to review my methodology in proposal.md"

Read the full file on GitHub · 51 lines

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

  1. 9d ago First seen · 51 lines · 619 tokens per session scan A 70ba444b136d

Subscribe to this mod's changes

co-researcher GEMINI.md is an instructions file published in the GitHub repository poemswe/co-researcher (128 stars, last pushed yesterday), licensed MIT. It adds 619 tokens to every session, about $0.0031 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.

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