{
    "info": {
        "author": "Cyrus Afrasiabi, Xinghua Zhou, Chunlei Wu",
        "author_email": "cwu@scripps.edu",
        "bugtrack_url": null,
        "classifiers": [
            "Development Status :: 4 - Beta",
            "Intended Audience :: Developers",
            "Intended Audience :: Science/Research",
            "License :: OSI Approved :: BSD License",
            "Operating System :: MacOS :: MacOS X",
            "Operating System :: Microsoft :: Windows",
            "Operating System :: OS Independent",
            "Operating System :: POSIX",
            "Programming Language :: Python",
            "Programming Language :: Python :: 2",
            "Programming Language :: Python :: 2.7",
            "Programming Language :: Python :: 3",
            "Programming Language :: Python :: 3.4",
            "Programming Language :: Python :: 3.5",
            "Programming Language :: Python :: 3.6",
            "Programming Language :: Python :: 3.7",
            "Topic :: Scientific/Engineering :: Bio-Informatics",
            "Topic :: Utilities"
        ],
        "description": ".. image:: https://badge.fury.io/py/biothings-client.svg\n    :target: https://pypi.python.org/pypi/biothings-client\n\n.. image:: https://img.shields.io/pypi/pyversions/biothings-client.svg\n    :target: https://pypi.python.org/pypi/biothings-client\n\n.. image:: https://img.shields.io/pypi/format/biothings-client.svg\n    :target: https://pypi.python.org/pypi/biothings-client\n\n.. image:: https://travis-ci.org/biothings/biothings_client.py.svg?branch=master\n    :target: https://travis-ci.org/biothings/biothings_client.py\n\n.. image:: https://api.codacy.com/project/badge/Grade/0ec3b39fb487418686ca121d623ec96c\n   :alt: Codacy Badge\n   :target: https://app.codacy.com/app/newgene/biothings_client.py?utm_source=github.com&utm_medium=referral&utm_content=biothings/biothings_client.py&utm_campaign=Badge_Grade_Dashboard\n\nIntro\n=====\n\n*biothings_client* is an easy-to-use Python wrapper to access any Biothings.api_\n-based backend service. Currently, the following clients are available:\n\n    * gene - The client for MyGene.Info_, which provides access to gene objects.\n    * variant - The client MyVariant.Info_, which provides access to genetic variant objects.\n    * chem - The client for MyChem.Info_, which provides access to chemical/drug objects.\n    * disease - The client for MyDisease.Info_, which provides access to disease objects.\n    * taxon - The client for t.biothings.io_, which provides access to taxon objects.\n\n.. _t.biothings.io: http://t.biothings.io\n.. _Biothings.api: http://biothings.io\n.. _MyGene.Info: http://mygene.info\n.. _MyVariant.Info: http://myvariant.info\n.. _MyChem.Info: http://mychem.info\n.. _MyDisease.Info: http://mydisease.info\n.. _requests: https://pypi.python.org/pypi/requests\n\nRequirements\n============\n    python >=2.7 (including all python3 versions)\n\n    (It may still work under python 2.6, but it's not supported any more.)\n\n    requests_ (install using \"pip install requests\")\n\nOptional dependencies\n======================\n    * `pandas <http://pandas.pydata.org>`_ (install using \"pip install pandas\") is required for returning a list of variant objects as `DataFrame <http://pandas.pydata.org/pandas-docs/stable/dsintro.html#dataframe>`_.\n    * `requests_cache <https://pypi.python.org/pypi/requests-cache>`_ (install using \"pip install requests_cache\") is required for local caching of API requests.\n\nInstallation\n=============\n\n    Option 1\n          ::\n\n           pip install biothings_client\n\n    Option 2\n          download/extract the source code and run::\n\n           python setup.py install\n\n    Option 3\n          install the latest code directly from the repository::\n\n            pip install -e git+https://github.com/biothings/biothings_client.py\n\nVersion history\n===============\n\n    `CHANGES.txt <https://raw.githubusercontent.com/biothings/biothings_client.py/master/CHANGES.txt>`_\n\nTutorial\n=========\n\n    See the `quick start tutorial <https://biothings-clientpy.readthedocs.io/en/latest/doc/Quick-Start.html>`_ at the `biothings_client doc page <https://biothings-clientpy.readthedocs.io/en/latest/index.html>`_.\n\nDocumentation\n=============\n\n    https://biothings-clientpy.readthedocs.io\n\nUsage\n=====\n\n.. code-block:: python\n\n    In [1]: from biothings_client import get_client\n\n    # get a client for variant objects\n\n    In [2]: mv = get_client(\"variant\")\n\n    In [3]: mv.getvariant(\"chr7:g.140453134T>C\")\n    Out[3]:  #output below is collapsed\n    {\"_id\": \"chr7:g.140453134T>C\",\n     \"_version\": 1,\n     \"chrom\": \"7\",\n     \"cadd\": {...},\n     \"clinvar\": {...},\n     \"cosmic\": {...},\n     \"dbnsfp\": {...},\n     \"dbsnp\": {...},\n     \"docm\": {...},\n     \"hg19\": {'end': 140453134, 'start': 140453134},\n     \"mutdb\": {...},\n     \"snpeff\": {...},\n     \"vcf\": {\n        \"alt\": \"C\",\n        \"position\": \"140453134\",\n        \"ref\": \"T\"\n     }}\n\n    # get a client for gene objects\n\n    In [7]: mg = get_client(\"gene\")\n\n    In [8]: mg.getgene(1017, 'name,symbol,refseq')\n    Out[8]:\n    {'_id': '1017',\n     '_score': 21.03413,\n     'name': 'cyclin dependent kinase 2',\n     'refseq': {'genomic': ['NC_000012.12', 'NC_018923.2', 'NG_034014.1'],\n      'protein': ['NP_001277159.1',\n       'NP_001789.2',\n       'NP_439892.2',\n       'XP_011536034.1'],\n      'rna': ['NM_001290230.1', 'NM_001798.4', 'NM_052827.3', 'XM_011537732.1'],\n      'translation': [{'protein': 'NP_001789.2', 'rna': 'NM_001798.4'},\n       {'protein': 'NP_439892.2', 'rna': 'NM_052827.3'},\n       {'protein': 'NP_001277159.1', 'rna': 'NM_001290230.1'},\n       {'protein': 'XP_011536034.1', 'rna': 'XM_011537732.1'}]},\n     'symbol': 'CDK2'}\n\n    # get a client for chems/drugs\n\n    In [9]: md = get_client(\"chem\")\n\n    In [10]: md.getchem(\"ATBDZSAENDYQDW-UHFFFAOYSA-N\", fields=\"pubchem\")\n    Out[10]:\n    {'_id': 'ATBDZSAENDYQDW-UHFFFAOYSA-N',\n     '_version': 1,\n     'pubchem': {'chiral_atom_count': 0,\n      'chiral_bond_count': 0,\n      'cid': 'CID4080429',\n      'complexity': 250,\n      'covalently-bonded_unit_count': 1,\n      'defined_atom_stereocenter_count': 0,\n      'defined_bond_stereocenter_count': 0,\n      'exact_mass': 184.019415,\n      'formal_charge': 0,\n      'heavy_atom_count': 12,\n      'hydrogen_bond_acceptor_count': 3,\n      'hydrogen_bond_donor_count': 1,\n      'inchi': 'InChI=1S/C8H8O3S/c1-2-7-4-3-5-8(6-7)12(9,10)11/h2-6H,1H2,(H,9,10,11)',\n      'inchi_key': 'ATBDZSAENDYQDW-UHFFFAOYSA-N',\n      'isotope_atom_count': 0,\n      'iupac': {'traditional': '3-vinylbesylic acid'},\n      'molecular_formula': 'C8H8O3S',\n      'molecular_weight': 184.21232,\n      'monoisotopic_weight': 184.019415,\n      'rotatable_bond_count': 2,\n      'smiles': {'isomeric': 'C=CC1=CC(=CC=C1)S(=O)(=O)O'},\n      'tautomers_count': 1,\n      'topological_polar_surface_area': 62.8,\n      'undefined_atom_stereocenter_count': 0,\n      'undefined_bond_stereocenter_count': 0,\n      'xlogp': 1.4}}\n\n    # get a client for taxa\n\n    In [11]: mt = get_client(\"taxon\")\n\n    In [12]: mt.gettaxon(9606)\n    Out[12]:\n    {'_id': '9606',\n     '_version': 1,\n     'authority': ['homo sapiens linnaeus, 1758'],\n     'common_name': 'man',\n     'genbank_common_name': 'human',\n     'has_gene': True,\n     'lineage': [9606,\n      9605,\n      207598,\n      9604,\n      314295,\n      9526,\n      314293,\n      376913,\n      9443,\n      314146,\n      1437010,\n      9347,\n      32525,\n      40674,\n      32524,\n      32523,\n      1338369,\n      8287,\n      117571,\n      117570,\n      7776,\n      7742,\n      89593,\n      7711,\n      33511,\n      33213,\n      6072,\n      33208,\n      33154,\n      2759,\n      131567,\n      1],\n     'other_names': ['humans'],\n     'parent_taxid': 9605,\n     'rank': 'species',\n     'scientific_name': 'homo sapiens',\n     'taxid': 9606,\n     'uniprot_name': 'homo sapiens'}\n\nContact\n========\nDrop us any feedback `@biothingsapi <https://twitter.com/biothingsapi>`_\n\n\n",
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        "keywords": "biology variant gene taxon species drug annotation web service client api myvariant mygene",
        "license": "BSD",
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