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systematic-review-prisma

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Aktualisiert1. Juli 2026 um 23:09

Run systematic-review workflows: protocol/PICO framing, search strings, screening logs, PRISMA flow, extraction tables, risk-of-bias checks, and evidence synthesis with citation verification.

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BaranziniLab

BaranziniLab/biorouter-skills

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Sonstige HochschullehrerBildungs- und Bibliotheksberufe·SOC 25-1199

SKILL.md

readonly

name	systematic-review-prisma
description	Run systematic-review workflows: protocol/PICO framing, search strings, screening logs, PRISMA flow, extraction tables, risk-of-bias checks, and evidence synthesis with citation verification.

Systematic Review and PRISMA

Source adaptation: BioRouter-original synthesis inspired by broad Scientific Agent Skills and Auto-Empirical Research Skills capability patterns, rewritten under Apache-2.0. Do not copy upstream text; use this as a native BioRouter routing and quality-control checklist.

When to Use

Use this skill when the user asks for Systematic Review. Load more specific BioSkills, BRXT extensions, or language skills when the task touches a concrete dataset, file format, package, or platform.

Intake

Collect the minimum context before acting:

Research question or operational goal.
Data source, file format, platform, package, or API involved.
Unit of analysis and expected output.
Privacy, credential, licensing, and compute constraints.
Whether the user wants a plan, executable code, review, or installed-tool workflow.

Native BioRouter Routing

Prefer these BioRouter-native routes before writing new glue code:

Use relevant BRXT extensions when platform/API access is needed.
Use scientific-research for broad research orchestration.
Use citation-temporal-integrity and claim-evidence-integrity for evidence-heavy deliverables.
Use replication-package-audit when outputs must be reproducible.
Use python-scripting, r-scripting, or BioSkills for package-specific code style.

Quality Gates

Before presenting results as final:

State the data provenance and tool/package versions.
Separate exploratory output from confirmatory evidence.
Check that identifiers, coordinates, sample ids, citations, or run ids are preserved.
Identify assumptions that could change the conclusion.
Provide a rerunnable command, notebook cell, or workflow outline when execution is involved.
Mark anything requiring credentials, proprietary data, or external services as unverified unless it was actually checked.

Output Pattern

Return a compact work plan first, then the implementation or review. For each result, include:

Decision made.
Evidence or file/API source.
Failure modes.
Next verification step.

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name	systematic-review-prisma
description	Run systematic-review workflows: protocol/PICO framing, search strings, screening logs, PRISMA flow, extraction tables, risk-of-bias checks, and evidence synthesis with citation verification.

Systematic Review and PRISMA

When to Use

Use this skill when the user asks for Systematic Review. Load more specific BioSkills, BRXT extensions, or language skills when the task touches a concrete dataset, file format, package, or platform.

Intake

Collect the minimum context before acting:

Research question or operational goal.
Data source, file format, platform, package, or API involved.
Unit of analysis and expected output.
Privacy, credential, licensing, and compute constraints.
Whether the user wants a plan, executable code, review, or installed-tool workflow.

Native BioRouter Routing

Prefer these BioRouter-native routes before writing new glue code:

Use relevant BRXT extensions when platform/API access is needed.
Use scientific-research for broad research orchestration.
Use citation-temporal-integrity and claim-evidence-integrity for evidence-heavy deliverables.
Use replication-package-audit when outputs must be reproducible.
Use python-scripting, r-scripting, or BioSkills for package-specific code style.

Quality Gates

Before presenting results as final:

State the data provenance and tool/package versions.
Separate exploratory output from confirmatory evidence.
Check that identifiers, coordinates, sample ids, citations, or run ids are preserved.
Identify assumptions that could change the conclusion.
Provide a rerunnable command, notebook cell, or workflow outline when execution is involved.
Mark anything requiring credentials, proprietary data, or external services as unverified unless it was actually checked.

Output Pattern

Return a compact work plan first, then the implementation or review. For each result, include:

Decision made.
Evidence or file/API source.
Failure modes.
Next verification step.