Python 3 Bindings to the native GenomicsDB library. Only queries are supported for now. For importing vcf files into GenomicsDB, use the command line tools - vcf2genomicsdb or gatk GenomicsDBImport.
Install genomicsdb binary wheels from PyPi with pip:
pip install genomicsdb
Or explicitly from a source distribution
# Download the source distribution from https://pypi.org/project/genomicsdb/#files as genomicsdb.source.tar.gz
tar xvf genomicsdb.source.tar.gz
cd genomicsdb-<version>
python setup.py install
See GenomicsDB query tool. The available scripts are genomicsdb_query and genomicsdb_cache with the supported output options being csv, json and parquet files.
See instructions for local builds and running tests.