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    "info": {
        "author": "Sen Yao",
        "author_email": "yaosen1313@gmail.com",
        "bugtrack_url": null,
        "classifiers": [
            "Development Status :: 4 - Beta",
            "Environment :: Console",
            "Intended Audience :: Developers",
            "Intended Audience :: Science/Research",
            "License :: OSI Approved :: BSD License",
            "Operating System :: OS Independent",
            "Programming Language :: Python :: 3.4",
            "Programming Language :: Python :: 3.5",
            "Programming Language :: Python :: 3.6",
            "Topic :: Scientific/Engineering :: Bio-Informatics",
            "Topic :: Software Development :: Libraries :: Python Modules"
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        "description": "pdb-eda\n==========\n\n.. image:: https://raw.githubusercontent.com/MoseleyBioinformaticsLab/pdb_eda/master/doc/_static/images/pdb_eda_logo.png\n   :width: 50%\n   :align: center\n   :target: https://pdb-eda.readthedocs.io/\n\nDescription\n-----------\nThe `pdb_eda` package provides a simple Python tool for parsing and analyzing electron density maps data\navailable from the world wide Protein Data Bank (PDB_).\n\nThe `pdb_eda` package currently provides facilities that can:\n    * Parse .ccp4 format file into their object representation.\n    * Parse .pdb format file to get information that complimentary to the Bio.PDB module in BioPython_ package.\n    * Analyze the electron density maps on atom/residue/chain level and\n      interpret the electron densities in terms of number of electrons.\n\nFull API documentation, user guide, and tutorial can be found on readthedocs_\n\nInstallation\n------------\n`pdb_eda` runs under Python 3.4+ and is available through python3-pip.\nInstall via pip or clone the git repo and install the following dependencies and you are ready to go!\n\nInstall on Linux, Mac OS X\n~~~~~~~~~~~~~~~~~~~~~~~~~~\n\n.. code:: bash\n\n   python3 -m pip install pdb_eda\n\nGitHub Package installation\n~~~~~~~~~~~~~~~~~~~~~~~~~~~\n\nMake sure you have git_ installed:\n\n.. code:: bash\n\n   git clone https://github.com/MoseleyBioinformaticsLab/pdb_eda.git\n\nDependencies\n~~~~~~~~~~~~\n\n`pdb_eda` requires the following Python libraries:\n\n   * Biopython_ for creating and analyzing the `pdb_eda` atom objects.\n   * pandas_ for calculating aggregated results.\n   * numpy_ and scipy_ for mathmatical calculations.\n   * docopt_ for better command line interface.\n   * jsonpickle_ for formatted and reusable output.\n\nTo install dependencies manually:\n\n.. code:: bash\n\n   pip3 install biopython\n   pip3 install pandas\n   pip3 install numpy\n   pip3 install scipy\n   pip3 install docopt\n   pip3 install jsonpickle\n\n\nBasic usage\n-----------\nThe `pdb_eda` package can be used in several ways:\n\n   * As a library for accessing and manipulating data in PDB or CCP4 format files.\n\n      * Create the `pdb_eda.densityAnalysis.fromPDBid` generator function that will generate\n        (yield) single `pdb_eda.densityAnalysis` instance at a time.\n\n      * Process each `pdb_eda.densityAnalysis` instance:\n\n         * Generate symmetry atoms.\n         * Generate red (negative density) or green (positive density) blob lists.\n         * Process PDB structures to aggregate cloud.\n         * Calculate atom blob list and statistics.\n\n   * As a command-line tool:\n\n      * Calculate statistics of a single PDB structure.\n      * Calculate aggregated statistics of multiple PDB structures.\n\n\n\n\n.. _readthedocs: https://pdb-eda.readthedocs.io/en/latest/\n.. _PDB: https://www.wwpdb.org/\n.. _BioPython: https://biopython.org/\n.. _git: https://git-scm.com/book/en/v2/Getting-Started-Installing-Git/\n.. _pandas: http://pandas.pydata.org/\n.. _numpy: http://www.numpy.org/\n.. _scipy: https://scipy.org/scipylib/index.html\n.. _docopt: http://docopt.org/\n.. _jsonpickle: https://github.com/jsonpickle/jsonpickle",
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        "keywords": "PDB,electron densiy map",
        "license": "Modified Clear BSD License",
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