Research Intelligence Protocol | Cognous
Skill · v1.0 · Discovery Protocol + Abstractor of Abstractors

Research Intelligence Protocol

A portable research-intelligence workflow for disciplined discovery and cross-domain structural abstraction — for problems where ordinary summarization or brainstorming is insufficient.

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What it is

From reality to transferable knowledge.

Two complementary protocols packaged as one reusable Skill, kept operationally distinct. A task that only requires evidence acquisition stops after Discovery. A task that begins with an existing evidence base can invoke AoA directly. A full workflow runs both in sequence.

Reality→Discovery Protocol→Structured Evidence→Abstractor of Abstractors→Tested Invariants→Transferable Knowledge
Two components

Evidence first. Abstraction second.

Component 1

Discovery Protocol

Governs the path from reality, observations, and experiments to structured evidence — improving evidence acquisition and hypothesis discrimination.

Prefer observations and experiments that distinguish among competing explanations over observations that merely confirm the current favorite.

X = (O, P, H, C, R, U, S)
OObserved phenomenaPPerturbationsHCompeting hypothesesCControlsRResultsUUncertainty ledgerSSafety and stopping conditions
Component 2

Abstractor of Abstractors

Governs the path from structured evidence to tested invariants, cross-domain transfer, and architecture-ready knowledge — without confusing analogy with equivalence.

Candidate abstractions must compete, survive structural discrimination, preserve provenance and uncertainty, and state transfer limits explicitly.

S = (E, R, F, D, B, G, C)
EEntitiesRRelationsFFunctional rolesDDynamicsBBoundariesGGovernanceCContext and substrate
The equivalence ladder

Resemblance is not equivalence.

AoA assigns the strongest supported level — and no higher. Superficial resemblance is never presented as functional, dynamic, governed, or formal equivalence.

Level
Meaning
E0
Surface resemblance
E1
Relational correspondence
E2
Functional equivalence
E3
Dynamic correspondence
E4
Governed structural equivalence
E5
Formal isomorphism
Why they are separate

Two different epistemic problems.

Keeping the components separate reduces a common failure mode in AI-assisted research: abstracting too early from observations that have not earned sufficient evidentiary status.

Discovery asks

What evidence should we acquire next, and what does that evidence justify?

AoA asks

What reusable structure survives across the evidence, and how far can that structure legitimately transfer?

Core benefits

Research that stays honest about what it knows.

Hypothesis discrimination

Prioritizes experiments that separate competing explanations rather than accumulating support for one favored theory.

Explicit uncertainty

Unknowns, confounds, assumptions, and surviving alternatives stay visible instead of collapsing into a single narrative.

Research lineage

Rejected hypotheses and failed experiments remain part of the record. Conclusions revise without rewriting history.

Disciplined abstraction

Distinguishes observed material, derived structure, candidate abstractions, supported invariants, speculation, and rejected mappings.

Safer transfer

The equivalence ladder keeps cross-domain mappings honest about how much structure actually carries over.

Modular use

Discovery alone, AoA alone, or both in sequence — the Skill does not run the full pipeline when the task needs one component.

Typical use cases

Where it earns its keep.

Discovery
Scientific or technical investigation

Structure observations, generate competing explanations, and find the next experiment with the highest discriminatory value.

Discovery
Root-cause analysis

Distinguish plausible mechanisms with controlled tests rather than arguing from narrative coherence.

AoA
Cross-domain research

Test whether structures in one domain transfer to another at the relational, functional, dynamic, governance, or formal level.

AoA
Technology transfer

Map source and target roles, preserved relations, known mismatches, transfer assumptions, and falsifiers.

AoA
Patent and architecture research

Identify structural invariants while keeping observed and derived material separate.

Both
Full research-intelligence workflow

Discovery produces a structured evidence corpus; AoA then tests which structures deserve compression and transfer.

Who it is for

Teams doing research-intensive, evidence-sensitive work.

Especially useful for competing hypotheses, weak or incomplete evidence, cross-domain analogy, causal uncertainty, or the temptation to compress a complex system too early.

Scientific and technical researchers
R&D organizations
Engineering teams
Product and systems architects
Strategy and management consultants
Due-diligence and investment teams
Technology-transfer teams
Patent and prior-art researchers
Root-cause and incident-analysis teams
Interdisciplinary research groups
Founders and executives evaluating unfamiliar technical domains
Analysts working across heterogeneous evidence sources
Design principles

Nine rules the workflow keeps.

01Observation precedes interpretation.
02Discrimination is more valuable than confirmation.
03Uncertainty is preserved until evidence justifies reduction.
04Competing hypotheses and competing abstractions remain visible.
05Compression must not erase provenance or boundary conditions.
06Analogy must not be promoted into equivalence without structural support.
07Evidence constrains theory; theory does not rewrite evidence.
08Transfer requires explicit mappings, mismatches, assumptions, and falsifiers.
09The operator retains responsibility for objectives, constraints, evidence standards, and final interpretation.
How to use it

Invoke one component, or the whole sequence.

Both components support compact, standard, and deep output modes. Depth is driven by the research problem, not by a desire for longer prose.

Use the Discovery Protocol.Use Abstractor of Abstractors on this evidence set.Run the Research Intelligence Protocol end to end.
Boundaries

What it does not do.

Guarantee factual correctness
Replace domain experts or scientific judgment
Create experimental evidence that was not observed
Perform physical experiments without tools or human execution
Turn correlation into causation
Turn analogy into equivalence
Guarantee formal proof
Replace primary-source verification
Replace legal, medical, safety, regulatory, or institutional authority
Expose or require private chain-of-thought
Eliminate model variability across platforms and versions

A protocol can discipline reasoning but cannot certify that a model output is true. Use it to improve the structure and inspectability of research work, then verify consequential claims against appropriate evidence.

Installation

Install the protocol where you already work.

Distributed as an open SKILL.md-based package. The guide distinguishes native Agent Skill installation from compatibility approaches on platforms that use a different customization mechanism.

ChatGPT

Platform-specific steps in the installation guide.

Claude

Platform-specific steps in the installation guide.

Gemini

Platform-specific steps in the installation guide.

GitHub Copilot

Platform-specific steps in the installation guide.

Read INSTALLATION.md

Bring discipline to your next investigation.

Open, modular, and versioned. Fork it, test it, and benchmark it against your own research.

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