biotite.database

A subpackage for fetching data from online databases.

Each subpackage of the database package contains an interface for a specific database.

All subpackages provide at least two functions: search() is used to search for IDs (e.g. PDB ID) that match the given search parameters. The search parameters are usually abstracted by the respective Query objects. Then the obtained IDs can be given to the fetch() function to download the associated files.

Content

RequestError

Indicates that the database returned a response with an error message or other malformed content.

Subpackages

biotite.database.rcsb

A subpackage for downloading files from the RCSB PDB.

biotite.database.pubchem

A subpackage for searching and downloading files from the PubChem database.

biotite.database.uniprot

A subpackage for downloading files from the UniProt.

biotite.database.entrez

A subpackage for downloading files from the NCBI Entrez database.