bkbit.data_translators package

Submodules

• bkbit.data_translators.anatomical_structure_translator module
  • AnS
    • AnS.assign_func_header()
    • AnS.generate_anatomical_annotation_set()
    • AnS.generate_anatomical_space()
    • AnS.generate_image_dataset()
    • AnS.generate_parcellation_annotation()
    • AnS.generate_parcellation_annotation_term_map()
    • AnS.generate_parcellation_atlas()
    • AnS.generate_parcellation_color_assignment()
    • AnS.generate_parcellation_color_scheme()
    • AnS.generate_parcellation_term()
    • AnS.generate_parcellation_term_set()
    • AnS.generate_parcellation_terminology()
    • AnS.provide_data()
    • AnS.read_data()
    • AnS.serialize_to_jsonld()
• bkbit.data_translators.file_manifest_translator module
  • process_csv()
  • process_row()
  • serialize_to_jsonld()
• bkbit.data_translators.genome_annotation_translator module
  • Gff3
    • Gff3.content_url
    • Gff3.assembly_accession
    • Gff3.assembly_strain
    • Gff3.log_level
    • Gff3.log_to_file
    • Gff3.__init__()
    • Gff3.parse_url()
    • Gff3.__download_gff_file()
    • Gff3.generate_organism_taxon()
    • Gff3.assign_authority_type()
    • Gff3.generate_genome_assembly()
    • Gff3.generate_genome_annotation()
    • Gff3.generate_digest()
    • Gff3.__get_line_count()
    • Gff3.parse()
    • Gff3.generate_ensembl_gene_annotation()
    • Gff3.generate_ncbi_gene_annotation()
    • Gff3.__get_attribute()
    • Gff3.__resolve_ncbi_gene_annotation()
    • Gff3.__merge_values()
    • Gff3.serialize_to_jsonld()
    • Gff3.assign_authority_type()
    • Gff3.generate_digest()
    • Gff3.generate_ensembl_gene_annotation()
    • Gff3.generate_genome_annotation()
    • Gff3.generate_genome_assembly()
    • Gff3.generate_ncbi_gene_annotation()
    • Gff3.generate_organism_taxon()
    • Gff3.parse()
    • Gff3.parse_url()
    • Gff3.serialize_to_jsonld()
• bkbit.data_translators.library_generation_translator module
  • SpecimenPortal
    • SpecimenPortal.jwt_token
    • SpecimenPortal.generated_objects
    • SpecimenPortal.get_field_type()
    • SpecimenPortal.parse_nhash_id_bottom_up()
    • SpecimenPortal.parse_nhash_id_top_down()
    • SpecimenPortal.generate_bican_object()
    • SpecimenPortal.serialize_to_jsonld()
    • SpecimenPortal.parse_single_nashid()
    • SpecimenPortal.parse_multiple_nashids()
    • SpecimenPortal.generate_bican_object()
    • SpecimenPortal.get_field_type()
    • SpecimenPortal.parse_nhash_id_bottom_up()
    • SpecimenPortal.parse_nhash_id_top_down()
    • SpecimenPortal.serialize_to_jsonld()
  • parse_multiple_nashids()
  • parse_single_nashid()

Module contents