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Academic Paper Search Examples

Navigate through research papers, academic articles, dissertations, and scholarly content efficiently using Oboyu's powerful search capabilities.

Scenario: PhD Researcher​

Managing hundreds of research papers across multiple topics, tracking citations, and organizing literature reviews.

Setting Up Research Index​

# Index research papers
oboyu index ~/Research/Papers --db-path ~/indexes/research.db \
    --include "*.pdf" \
    --include "*.tex" \
    --include "*.bib"

# Add thesis drafts and notes
oboyu index ~/Research/Thesis --db-path ~/indexes/thesis.db --update
oboyu index ~/Research/Notes --db-path ~/indexes/research-notes.db --update

Literature Review Workflow​

Finding Relevant Papers​

# Search by topic
oboyu query --query "machine learning optimization" --db-path ~/indexes/research.db

# Find recent papers
oboyu query --query "neural networks 2023 2024" --mode hybrid

# Search by methodology
oboyu query --query "methodology quantitative analysis" --mode vector

Citation Management​

# Find papers by author
oboyu query --query "author: Smith et al"

# Find papers citing specific work
oboyu query --query "Smith2023 cited reference" --mode vector

# Find papers with specific citations
oboyu query --query "\(Smith, 2023\)|\[Smith2023\]"

Scenario: Research Group Leader​

Coordinating multiple research projects, tracking student progress, and managing collaborative papers.

Project Management​

# Find papers by project
oboyu query --query "Project-ID: ML-OPT-2024" --db-path ~/indexes/research.db

# Track student contributions
oboyu query --query "author: PhD-Student-Name"

# Find collaborative papers
oboyu query --query "author: University-A University-B" --mode vector

Grant Writing Support​

# Find impact statements
oboyu query --query "impact significance contribution" --mode vector

# Gather preliminary results
oboyu query --query "preliminary results findings"

# Find methodology descriptions
oboyu query --query "methodology approach technique" --db-path ~/indexes/research.db

Scenario: Academic Librarian​

Helping researchers find relevant papers and managing institutional repository.

Advanced Search Assistance​

# Multi-field search
oboyu query --query "title: machine learning AND author: Chen AND year: 2023"

# Subject area search
oboyu query --query "subject: computer science AI" --mode vector

# Abstract search
oboyu query --query "abstract: novel approach deep learning" --mode vector

Repository Management​

# Find papers missing metadata
oboyu query --query "*.pdf" --not "author: title:"

# Find duplicate papers
# (Note: duplicates detection not available in current implementation)
oboyu query --query "*" --db-path ~/indexes/research.db

# Find papers needing OCR
# (Note: min-words filter not available in current implementation)
oboyu query --query "*.pdf"

Advanced Academic Search Patterns​

Finding Specific Sections​

# Find introductions
oboyu query --query "1. Introduction|1 Introduction"

# Find methodologies
oboyu query --query "Methodology|Methods|Experimental Setup" --mode vector

# Find results sections
oboyu query --query "Results|Findings|Experimental Results" 

# Find conclusions
oboyu query --query "Conclusion|Summary|Future Work" --mode vector

Statistical Analysis​

# Find papers with specific statistics
oboyu query --query "p < 0.05|significant at"

# Find sample sizes
oboyu query --query "n = \d+|sample size|participants"

# Find effect sizes
oboyu query --query "effect size|Cohen's d|eta squared"

Real-World Example: Systematic Literature Review​

Conducting a systematic review on "AI in Healthcare":

# 1. Initial broad search
oboyu query --query "artificial intelligence healthcare medical" --db-path ~/indexes/research.db

# 2. Refine by methodology
oboyu query --query "AI healthcare clinical trial" --mode vector

# 3. Find review papers
oboyu query --query "systematic review AI healthcare" --mode hybrid

# 4. Search by specific applications
oboyu query --query "diagnosis prediction treatment AI"

# 5. Find datasets used
oboyu query --query "dataset: medical imaging ECG" --mode vector

# 6. Extract evaluation metrics
oboyu query --query "accuracy precision recall F1 AUC"

# 7. Create bibliography
oboyu query --query "references bibliography"

Research Paper Patterns​

Conference vs Journal​

# Find conference papers
oboyu query --query "conference proceedings ICML NeurIPS CVPR" 

# Find journal articles  
oboyu query --query "journal IEEE ACM Nature Science" 

# Find preprints
oboyu query --query "arXiv bioRxiv preprint" --mode vector
# Track emerging topics
oboyu query --query "novel approach new method" --mode vector

# Find research gaps
oboyu query --query "future work limitation gap" --mode vector

# Identify hot topics
oboyu query --query "state-of-the-art SOTA benchmark"

Citation Network Analysis​

Building Citation Maps​

# Find most cited papers
# (Note: citation analysis not available in current implementation)
oboyu query --query "transformer attention BERT" --mode vector --top-k 20

# Find citation clusters
oboyu query --query "transformer attention BERT" --mode vector

# Track citation evolution
# (Note: timeline analysis not available in current implementation)
oboyu query --query "cited by subsequent work"

Author Collaboration​

# Find frequent collaborators
# (Note: collaboration statistics not available in current implementation)
oboyu query --query "author:"

# Find international collaborations
oboyu query --query "University Country-A Country-B" --mode vector

# Find interdisciplinary work
oboyu query --query "computer science biology interdisciplinary" --mode vector

For Japanese research papers:

# Search Japanese papers
oboyu query --query "ζ©Ÿζ’°ε­¦ηΏ’ ζ·±ε±€ε­¦ηΏ’" --db-path ~/indexes/research.db

# Find papers with English abstracts
oboyu query --query "Abstract 概要"

# Mixed language papers
oboyu query --query "ζ·±ε±€ε­¦ηΏ’ deep learning" --mode hybrid

# Japanese author names
oboyu query --query "θ‘—θ€…: ε±±η”° η”°δΈ­" --db-path ~/indexes/research.db

Research Note Organization​

Effective Tagging​

---
title: "Paper Review: Smith et al. 2023"
tags: [machine-learning, optimization, reviewed]
project: ML-OPT-2024
date: 2024-01-15
---

## Key Findings
- Finding 1: ...
- Finding 2: ...

## Relevance to My Research
...

## Questions/Critiques
...

Literature Database​

# Create paper database
# (Note: extract-metadata option not available in current implementation)
oboyu index ~/Research/Papers --db-path ~/indexes/paper-db.db

# Search by metadata
oboyu query --query "year: 2023 AND venue: ICML" --db-path ~/indexes/paper-db.db

# Export for reference manager
# (Note: bibtex export not available in current implementation)
oboyu query --query "*" --db-path ~/indexes/paper-db.db

Integration with Research Tools​

LaTeX Integration​

# Find citations in LaTeX
oboyu query --query "\\cite{"

# Find undefined references
oboyu query --query "undefined reference"

# Find figure references
oboyu query --query "\\ref{fig:"

Reference Management​

# Export to BibTeX
# (Note: bibtex export not available in current implementation)
oboyu query --query "machine learning"

# Find missing citations
# (Note: not-in filter not available in current implementation)
oboyu query --query "\\cite{.*}"

# Update citation keys
# (Note: update-key functionality not available in current implementation)
oboyu query --query "author: Smith year: 2023"

Research Productivity Tips​

Daily Research Routine​

# Morning: Check new papers
oboyu query --query "*" --db-path ~/indexes/research.db

# Focus session: Related work
# (Note: related-to functionality not available in current implementation)
oboyu query --query "related work" --mode vector

# Evening: Update notes
oboyu query --query "TODO: read" --db-path ~/indexes/research-notes.db

Paper Reading Workflow​

# First pass: Abstract and conclusion
# (Note: file-specific search not available in current implementation)
oboyu query --query "abstract:|conclusion:"

# Second pass: Figures and results  
oboyu query --query "figure|table|results"

# Deep dive: Methodology
oboyu query --query "method|algorithm|implementation"

Quality Control​

Finding High-Quality Papers​

# Well-cited papers
oboyu query --query "cited by many highly cited" --mode vector

# Peer-reviewed only
oboyu query --query "peer-reviewed journal conference" --not "preprint arxiv"

# Reproducible research
oboyu query --query "code available github reproducible" --mode vector

Next Steps​