Index

_

__del__() (taxadb.taxadb.TaxaDB method) __init__() (taxadb.accessionid.AccessionID method) (taxadb.parser.Accession2TaxidParser method) (taxadb.parser.TaxaDumpParser method) (taxadb.parser.TaxaParser method) (taxadb.schema.DatabaseFactory method) (taxadb.taxadb.TaxaDB method) (taxadb.taxid.TaxID method)

__weakref__ (taxadb.parser.TaxaParser attribute) (taxadb.schema.DatabaseFactory attribute) (taxadb.taxadb.TaxaDB attribute) _load_config() (taxadb.schema.DatabaseFactory method) _set_args() (taxadb.schema.DatabaseFactory method) _unmapped_taxid() (taxadb.taxadb.TaxaDB method)

A

Accession (class in taxadb.schema) accession (taxadb.schema.Accession attribute)

accession2taxid() (taxadb.parser.Accession2TaxidParser method) Accession2TaxidParser (class in taxadb.parser) AccessionID (class in taxadb.accessionid)

C

cache_taxids() (taxadb.parser.TaxaParser static method) check_file() (taxadb.parser.TaxaParser static method)

check_list_ids() (taxadb.taxadb.TaxaDB static method) check_table_exists() (taxadb.taxadb.TaxaDB method) create_db() (in module taxadb.app)

D

DatabaseFactory (class in taxadb.schema) DoesNotExist (taxadb.schema.Accession attribute) (taxadb.schema.Taxa attribute)

download_files() (in module taxadb.app)

G

get() (taxadb.schema.DatabaseFactory method) (taxadb.taxadb.TaxaDB method)

get_database() (taxadb.schema.DatabaseFactory method)

H

has_parent() (taxadb.taxid.TaxID method)

I

id (taxadb.schema.Accession attribute)

L

lineage_id() (taxadb.accessionid.AccessionID method) (taxadb.taxid.TaxID method)

lineage_level (taxadb.schema.Taxa attribute) lineage_name() (taxadb.accessionid.AccessionID method) (taxadb.taxid.TaxID method)

M

MAX_LIST (taxadb.taxadb.TaxaDB attribute)

md5_check() (in module taxadb.util)

N

ncbi_taxid (taxadb.schema.Taxa attribute)

P

parent_taxid (taxadb.schema.Taxa attribute)

S

sci_name() (taxadb.accessionid.AccessionID method) (taxadb.taxid.TaxID method) set() (taxadb.schema.DatabaseFactory method) (taxadb.taxadb.TaxaDB method)

set_accession_file() (taxadb.parser.Accession2TaxidParser method) set_config() (taxadb.schema.DatabaseFactory method) set_names_file() (taxadb.parser.TaxaDumpParser method) set_nodes_file() (taxadb.parser.TaxaDumpParser method)

T

tax_name (taxadb.schema.Taxa attribute) Taxa (class in taxadb.schema) TaxaDB (class in taxadb.taxadb) taxadb.accessionid (module) taxadb.app (module) taxadb.parser (module) taxadb.schema (module) taxadb.taxadb (module)

taxadb.taxid (module) taxadb.util (module) TaxaDumpParser (class in taxadb.parser) TaxaParser (class in taxadb.parser) taxdump() (taxadb.parser.TaxaDumpParser method) TaxID (class in taxadb.taxid) taxid (taxadb.schema.Accession attribute) taxid() (taxadb.accessionid.AccessionID method)