rotifer.db.ncbi.mirror

Access genome data from a local mirror of the NCBI FTP site.

Cursors in this module behave like their rotifer.db.ncbi.ftp counterparts but read GenBank flat files from a local directory tree that mirrors the genomes section of the NCBI FTP site. No network connection is used.

Configuration

The mirror location defaults to the mirror entry of the rotifer.db.ncbi configuration, which falls back to the genomes directory under ROTIFER_DATA.

Classes

GeneNeighborhoodCursor([column, before, ...])	Fetch gene neighborhoods from genomes in a local mirror.
GenomeCursor([progress, tries, batch_size, ...])	Fetch genome sequences from a local mirror of the NCBI genomes repository.
GenomeFeaturesCursor([path, exclude_type, ...])	Fetch genome annotation from a local mirror as dataframes.