Database (pmaf.database)

Building and management of databases

This package database is responsible for construction, maintenance and management of taxonomic classification databases.

Database Manifests (Classes)

DatabaseGreengenes(*args, **kwargs)

Database class for Greengenes database McDonald et al. [MPG+12]

DatabaseOTL(*args, **kwargs)

Database class for OTL database Rees and Cranston [RC17]

DatabaseGTDB(*args, **kwargs)

Database class for GTDB database Parks et al. [PCC+20]

DatabaseUNITE(storage_hdf5_fp)

Database class for UNITE database Nilsson et al. [NLT+19]

DatabaseSILVA(*args, **kwargs)

Database class for SILVA database Glöckner et al. [GlocknerYQ+17]

Other (Classes)

DatabaseStorageManager(hdf5_filepath, …[, …])

Database hdf5 storage manager.