Dataset Objects

This page contains information about the dataset objects defined in datasets.py

classes:

• DataSet
  • contains any data relevant to the BEL Namespace and Annotation resource generator pipeline
  • methods
    • get_values - returns all non-obsolete values used as keys in the data dictionary
    • _str_ - returns identifying string for data object
• OrthologyDataSet
  • contains orthology relationship data
  • parent class - DataSet
  • methods
    • get_orthologs(term_id) - returns set of orthologs associated with term_id
• NamespaceDataSet
  • contains data for BEL Namespaces and Annotations including ids, terms, synonyms, and equivalences
  • parent class - DataSet
  • methods
    • get_label(term_id) - returns the value to be used as the preferred label for an associated term_id
    • get_name(term_id) - returns the term name to use as a title (or None)
    • get_xrefs(term_id) - returns set of equivalences for the term_id to other namespaces
    • get_species(term_id) - returns species associated with a term_id as NCBI tax ID, or None as applicable
    • get_encoding(term_id) - returns the encoding (allowed bel functions) for the term_id
    • get_concept_type(term_id) - if from an annotation concept schemes, returns set of AnnotationConcept types associated with then term_id
    • get_alt_symbols(term_id) - returns set of synonym symbols associated with the term_id
    • get_alt_names(term_id) - returns set of name synonyms associated with the term_id
    • *get_alt_ids(term_id)