@biothings-explorer/biothings_explorer_test_toolkit

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