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README.md
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@@ -210,10 +210,44 @@ Cross-ontology links discovered via shared external IDs (UMLS, Wikidata, MESH, e
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## Usage with DuckDB
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```python
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import duckdb
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# Query directly from HuggingFace
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con = duckdb.connect()
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con.execute("INSTALL httpfs; LOAD httpfs;")
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## Usage with DuckDB
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### Option 1: Pre-built database file (recommended)
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This repository includes a ready-to-use DuckDB database file (`datalake.duckdb`, 274 KB) with 145 SQL views pre-configured to read directly from HuggingFace. Download just this one file and query all 7 datasets immediately — no pipeline setup required.
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```python
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import duckdb
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con = duckdb.connect()
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con.execute("INSTALL httpfs; LOAD httpfs;")
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con.execute("ATTACH 'hf://datasets/J0nasW/science-datalake/datalake.duckdb' AS lake")
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# Query using familiar schema.table syntax
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df = con.execute("""
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SELECT doi, title, year, sciscinet_disruption, oa_cited_by_count
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FROM lake.xref.unified_papers
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WHERE sciscinet_disruption IS NOT NULL
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ORDER BY sciscinet_disruption DESC
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LIMIT 100
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""").df()
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# Cross-source joins work out of the box
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con.execute("""
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SELECT t.display_name AS topic, o.ontology, o.term_name, o.similarity
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FROM lake.xref.topic_ontology_map o
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JOIN lake.openalex.topics t ON t.id = o.topic_id
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WHERE o.similarity >= 0.85
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ORDER BY o.similarity DESC
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LIMIT 20
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""").df()
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```
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### Option 2: Direct Parquet queries
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You can also query individual Parquet files directly without the database file:
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```python
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import duckdb
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con = duckdb.connect()
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con.execute("INSTALL httpfs; LOAD httpfs;")
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