tiledbvcf

Manages large genomic variant data for population genomics by ingesting VCF/BCF files into TileDB-VCF datasets. Supports incremental sample addition, allowing you to build scalable variant databases for cohort studies.

Parallel queries on genomic variant data are supported across many samples and genomic regions. Enables efficient retrieval of specific variants from large TileDB-VCF datasets without scanning entire files.

Export subsets of large VCF datasets by querying specific samples or genomic regions from the TileDB-VCF dataset. Provides data export capabilities to extract filtered variant data for downstream genomics analysis.

Requires tiledb-py and tiledbvcf-py libraries to ingest VCF files and manage genomic variant data. These dependencies, along with pandas, pyarrow, and numpy, provide the environment for scalable VCF data operations.

Incremental sample addition to existing variant databases allows new VCF files to be ingested without recreating the entire TileDB-VCF dataset. Handles large datasets efficiently, making it ideal for growing cohort studies.