research-project-scaffold

Scaffolding academic research projects and refactoring existing ones for Alex-assisted workflows

Repository: fabioc-aloha/Alex_Plug_In
Letzte Quellaktivität: 15. April 2026 um 05:03
Erkannte Sprache von SKILL.md: Englisch
Sterne: 5
Forks: 3

Installationsoptionen

Standardmäßig ist der Prompt ausgewählt, der zuerst die Quelle prüft. Sie können zu einem direkten Befehl wechseln oder eine lokale Kopie herunterladen.

Mit Codex oder Claude installieren Kopieren Sie diesen Prompt, fügen Sie ihn in Codex, Claude oder einen anderen Assistant ein und lassen Sie die Skill-Seite prüfen und installieren.

Ein direkter Befehl überspringt den Prüf-Prompt. Prüfen Sie die Quelle, bevor Sie ihn ausführen.

npx skills add https://github.com/fabioc-aloha/Alex_Plug_In --skill research-project-scaffold

Der Befehl bleibt in einer Zeile. Scrollen Sie horizontal, um ihn vor dem Kopieren vollständig zu prüfen.

Sie bevorzugen eine lokale Kopie? Laden Sie die Dateien herunter, die SkillsMP derzeit vorliegen.

Quelldateien prüfen

Lesen Sie SKILL.md und alle von SkillsMP angezeigten Begleitdateien, bevor Sie sich für eine Installation entscheiden.

SKILL.md

Quellanweisungen · Schreibgeschützte Vorschau

Zurück zur Suche Zurück zur Installation

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Research Project Scaffold Skill

Scaffolding new academic research projects and refactoring existing ones for Alex-assisted workflows.

Purpose

Provide standardized structures and refactoring procedures for academic research projects that maximize Alex's ability to assist throughout the research lifecycle.

Scaffolding New Projects

Recommended Folder Structure

project-root/ ├── .github/ │ ├── copilot-instructions.md # Research-specific Alex context │ └── prompts/ │ └── literature-synthesis.prompt.md ├── docs/ │ ├── RESEARCH-PLAN.md # Objectives, timeline, milestones │ ├── METHODOLOGY.md # Research design decisions │ └── DECISION-LOG.md # Key decisions with rationale ├── data/ │ ├── raw/ # Untouched source data │ ├── processed/ # Cleaned/transformed data │ └── DATA-DICTIONARY.md # Variable definitions ├── analysis/ │ ├── scripts/ # Analysis code │ ├── outputs/ # Generated figures, tables │ └── notebooks/ # Exploratory analysis ├── writing/ │ ├── drafts/ # Work in progress │ ├── figures/ # Publication-ready figures │ └── submissions/ # Submitted versions ├── references/ │ ├── LITERATURE-MATRIX.md # Systematic literature tracking │ ├── pdfs/ # Source papers (if permitted) │ └── notes/ # Reading notes └── README.md # Project overview

Research Project Scaffold Skill

Scaffolding new academic research projects and refactoring existing ones for Alex-assisted workflows.

Purpose

Provide standardized structures and refactoring procedures for academic research projects that maximize Alex's ability to assist throughout the research lifecycle.

Scaffolding New Projects

Recommended Folder Structure

name	research-project-scaffold
description	Scaffolding academic research projects and refactoring existing ones for Alex-assisted workflows
tier	extended
applyTo	*/research,/academic,/scaffold*

name	research-project-scaffold
description	Scaffolding academic research projects and refactoring existing ones for Alex-assisted workflows
tier	extended
applyTo	*/research,/academic,/scaffold*

Original Location	New Location	Action
`data.csv`	`data/raw/original-data.csv`	Rename + move
`data_cleaned.csv`	`data/processed/data-cleaned.csv`	Move
`paper.docx`	`writing/drafts/paper-v1.docx`	Version + move
`notes.txt`	`references/notes/reading-notes.md`	Convert + move

Phase	Alex Integration	Key Actions
Planning	Research design consultation	Create RESEARCH-PLAN.md, set up structure
Literature	Summarization, gap analysis	Build LITERATURE-MATRIX.md systematically
Data Collection	Instrument review, protocol checking	Document in METHODOLOGY.md
Analysis	Code review, interpretation checking	Log decisions, version scripts
Writing	Drafting, citation checking, editing	Use references/ for fact-checking
Revision	Peer review response, formatting	Track versions in writing/submissions/

Smell	Refactoring
All files in root	Create folder hierarchy
Data mixed with analysis	Separate data/raw, data/processed, analysis/
Multiple draft versions scattered	Consolidate in writing/drafts with clear naming
References in random locations	Centralize in references/
No context for AI assistance	Create copilot-instructions.md
Decisions made but not recorded	Create retrospective DECISION-LOG.md
Literature notes disorganized	Build structured LITERATURE-MATRIX.md

IRB	Cost Range	Timeline	Best For
Sterling IRB	$1,500-3,000	2-3 weeks	Supplement studies
Solutions IRB	$1,000-2,500	2-3 weeks	Budget-conscious
Advarra	$2,000-4,000	2-4 weeks	Academic spinoffs
WCG IRB	$2,500-5,000	2-4 weeks	Large commercial

Level	Meaning	Basis
HIGH	Strong consensus	Multiple RCTs, mechanisms confirmed
MODERATE	Promising	Animal studies, small human trials
LOW	Emerging	Case reports, theoretical basis only
INSUFFICIENT	Unknown	No quality evidence available

Language	Suffix	Example
English	(none)	INFORMED-CONSENT.md
Spanish	-ES	INFORMED-CONSENT-ES.md
Portuguese	-PT	INFORMED-CONSENT-PT.md
Chinese	-ZH	INFORMED-CONSENT-ZH.md

Issue	Solution
Project too messy to audit	Start with just essential files, refactor incrementally
Lost track of versions	Use git log, create retrospective changelog
Data too sensitive for repo	Use .gitignore, document in DATA-DICTIONARY.md what exists
Analysis scripts break after move	Update relative paths, consider using project root as working directory
Can't remember decisions	Check email, drafts, commit messages for clues

research-project-scaffold

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Installationsoptionen

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