README.md

metadata

language:
  - en
license: apache-2.0
task_categories:
  - tabular-classification
tags:
  - biology
  - genomics
  - variant-annotation
  - ensembl
  - vcf
  - variants
  - parquet
  - bioinformatics
pretty_name: Ensembl Variations (Parquet)
size_categories:
  - 10G<n<100G

Ensembl Variations (Parquet Format)

This dataset contains Ensembl human genetic variations converted to Parquet format for fast and efficient VCF annotation.

Dataset Description

• Purpose: Fast annotation of VCF files with Ensembl variation data
• Format: Apache Parquet (columnar storage)
• Source: Ensembl Variation Database
• Updated: 2026-01-15
• Total Files: 25
• Total Size: ~13.7 GB

Usage

With Polars (Recommended)

import polars as pl

# Load variants for chromosome 21
df = pl.scan_parquet("hf://datasets/just-dna-seq/ensembl_variations/data/homo_sapiens-chr21.parquet")

# Filter variants by position
variants = df.filter(
    (pl.col("POS") >= 10000000) & (pl.col("POS") <= 20000000)
).collect()

print(variants)

License

This dataset is released under Apache 2.0 license. The original Ensembl data is available under their terms of use.

Maintenance

This dataset is maintained by the GenoBear project.

• GitHub: https://github.com/dna-seq/just-dna-lite
• HuggingFace: https://huggingface.co/just-dna-seq