flair.datasets.entity_linking.NCBI_TAXONOMY_DICTIONARY#

class flair.datasets.entity_linking.NCBI_TAXONOMY_DICTIONARY(base_path=None)View on GitHub #

Dictionary for named entity linking on organisms / species using the NCBI taxonomy ontology.

Further information about the ontology can be found at https://www.ncbi.nlm.nih.gov/taxonomy

__init__(base_path=None)View on GitHub #

Initialize the entity linking dictionary.

Parameters:

candidates – A iterable sequence of all Candidates contained in the knowledge base.
dataset_name – string to prefix concept IDs. To be used for custom dictionaries.

Methods

`__init__`([base_path])	Initialize the entity linking dictionary.
`download_dictionary`(data_dir)
`parse_dictionary`(original_file)
`to_in_memory_dictionary`()

Attributes

`candidates`
`database_name`	Name of the database represented by the dictionary.
`text_to_index`

download_dictionary(data_dir)View on GitHub #

parse_dictionary(original_file)View on GitHub #