tiledbvcf - Store, query, and export genomic variants
Stores, queries, and exports genomic variant data from VCF/BCF files using TileDB-VCF.
Tags
Updated: 2026-09-28Capabilities
Typical Inputs
Typical Outputs
What this skill does
- Create TileDB-VCF datasets
- Ingest single-sample VCF/BCF files
- Add samples incrementally
- Query regions and samples
- Filter variant attributes
- Export VCF/BCF or TSV
- List samples and statistics
- Calculate allele frequencies
- Perform sample quality control
Inputs
- Single-sample VCF/BCF files
- VCF/BCF index files
- Dataset URI
- Genomic regions
- Sample names
- Variant attributes
- Export format and output directory
- Cloud storage credentials
Outputs
- TileDB-VCF dataset
- Queried variant table
- Exported VCF/BCF or TSV files
- Sample listings and dataset statistics
- Allele frequency results
- Sample QC results
Requirements
- TileDB-VCF Python or CLI interface
- TileDB-Py and supporting packages
- Indexed single-sample VCF/BCF inputs
- Cloud storage authentication when applicable