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biothings_explorer_test_toolkit

Toolkit for generating random biomedical ids for testing biothings explorer related applications

Install

$ npm i @biothings-explorer/biothings_explorer_test_toolkit

Usage

const k = require('@biothings-explorer/biothings_explorer_test_toolkit');

let kit = new k();

// retrieve 10 NCBIGene IDs
kit.getRandomIds("Gene", "NCBIGene", 10);
//=> ["85456", "85461", "85462", "8578", "8622", "8630", "8669", "8761", "8798", "8899"]

// retrieve 60 CHEMBL.COMPOUND IDs
kit.getRandomIds("ChemicalSubstance", "CHEMBL.COMPOUND", 60);
//=> ["CHEMBL.COMPOUND": ["CHEMBL286494", "CHEMBL1321", "CHEMBL404520", "CHEMBL65794", "CHEMBL373081", "CHEMBL100259", "CHEMBL331378", "CHEMBL279229", "CHEMBL826", "CHEMBL2105527", "CHEMBL566", "CHEMBL1201237", "CHEMBL186720", "CHEMBL2103873", "CHEMBL1540", "CHEMBL46469", "CHEMBL1652", "CHEMBL506110", "CHEMBL1371770", ...]

Current supported Semantic Types and Identifier Types

  • Gene

    1. NCBIGene
    2. ENSEMBL
    3. HGNC
    4. SYMBOL
    5. UniProtKB
    6. UMLS
    7. name

  • SequenceVariant

    1. HGVS
    2. DBSNP
    3. MYVARIANT_HG19
    4. ClinVar

  • ChemicalSubstance

    1. CHEBI
    2. CHEMBL.COMPOUND
    3. DRUGBANK
    4. PUBCHEM
    5. MESH
    6. INCHI
    7. INCHIKEY
    8. UNII
    9. KEGG
    10. UMLS
    11. name
    12. id

  • Disease

    1. MONDO
    2. DOID
    3. OMIM
    4. ORPHANET
    5. EFO
    6. UMLS
    7. MESH
    8. name

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