Ingest, store, and query genomic variant data with TileDB.
npx skills add https://github.com/swaruplab/operon --skill tiledbvcf-swaruplab
Please help me install this Agent Skill. Skill: tiledbvcf Source: https://github.com/swaruplab/operon/tree/main/src-tauri/protocols/tiledbvcf Command: npx skills add https://github.com/swaruplab/operon --skill tiledbvcf-swaruplab
TileDB-VCF enables scalable storage, indexing, and rapid querying of genomic variant data (VCF/BCF) across large cohorts, with cross-cloud export support.
Create a TileDB-VCF dataset, ingest a VCF file, and run a simple region query to validate end-to-end data access.
High-intent search queries and answers about installing and using this skill.
Ingest VCF or BCF files into a TileDB-VCF dataset using the CLI or Python API to create scalable storage. You can then run parallel region queries across multiple samples and export the results to VCF, BCF, or TSV formats for downstream analysis.
Yes, TileDB-VCF supports incremental sample addition to an existing dataset. You can ingest single or multiple VCF and BCF files over time without reloading the entire cohort, allowing you to expand your genomic variant storage as new data becomes available.
TileDB-VCF supports querying genomic variants stored across local or cloud storage environments. It offers high-performance region queries and cross-cloud export capabilities, allowing you to extract variant annotations and export to VCF, BCF, or TSV formats from cloud datasets.
You need a TileDB-enabled environment with Python bindings to use the Python API for genomic variant ingestion and queries. TileDB-VCF also offers a command line interface for end-to-end workflows if you prefer not to use Python directly.
The best way to export queried variant annotations is by using TileDB-VCF's export functionality to output results in VCF, BCF, or TSV formats. This allows you to easily share extracted genomic variants and integrate them into downstream analyses.
JosephWoodallStore and retrieve genomic variant data from VCF/BCF files using TileDB.
jaechang-hitsFilter, merge, annotate, and extract genetic variants in VCF and BCF files.
OwnLabAIIngest and query genomic variant data using TileDB-VCF.
SciMate-AIStore, ingest, and query genomic variant data with TileDB-VCF.
