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        "author": "Saket Choudhary",
        "author_email": "saketkc@gmail.com",
        "bugtrack_url": null,
        "classifiers": [
            "License :: OSI Approved :: BSD License",
            "Natural Language :: English",
            "Programming Language :: Python :: 2",
            "Programming Language :: Python :: 2.7",
            "Programming Language :: Python :: 3",
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        "description": "=============================================================\nriboraptor : a pipeline for analysing ribosome profiling data\n=============================================================\n\n\n.. image:: https://img.shields.io/pypi/v/riboraptor.svg\n        :target: https://pypi.python.org/pypi/riboraptor\n\n.. image:: https://travis-ci.org/saketkc/riboraptor.svg?branch=master\n        :target: https://travis-ci.org/saketkc/riboraptor\n\n.. .. image:: https://pyup.io/repos/github/saketkc/riboraptor/shield.svg\n     :target: https://pyup.io/repos/github/saketkc/riboraptor/\n     :alt: Updates\n\n.. _Miniconda: https://conda.io/miniconda.html\n.. _`aspera connect`: http://downloads.asperasoft.com/en/downloads/8?list\n\n\nPython package to analyse ribosome profiling data\n\n\n* Free software: BSD license\n* Documentation: http://saketkc.github.io/riboraptor/\n\n\nInstallation\n------------\n\nSetting up conda\n~~~~~~~~~~~~~~~~\n\n#. Install `conda`, the best way to install it is with the Miniconda_ package.The Python 3 version is recommended.\n\n#. Set up channels, **It is important to add them in this order**.\n\n.. code-block:: bash\n\n   conda config --add channels r\n   conda config --add channels defaults\n   conda config --add channels conda-forge\n   conda config --add channels bioconda\n\nInstalling dependencies\n~~~~~~~~~~~~~~~~~~~~~~~\n\n.. code-block:: bash\n\n   conda create --name riboraptor python=3.6 matplotlib numpy pandas pybedtools \\\n   pyBigWig pyfaidx pysam scipy seaborn statsmodels six click click-help-colors htseq biopython \\\n   snakemake sra-tools star fastqc trim-galore ucsc-bedgraphtobigwig ucsc-bedsort\n\nInstalling riboraptor\n~~~~~~~~~~~~~~~~~~~~~\n\n.. code-block:: bash\n\n   source activate riboraptor\n   git clone git@github.com:saketkc/riboraptor.git\n   cd riboraptor\n   python setup.py install --single-version-externally-managed --record=/tmp/record.txt\n\nDownloading datasets from SRA\n-----------------------------\n\n#. Install `aspera connect`_ \n#. Install additional dependencies\n\n.. code-block:: bash\n\n   source activate riboraptor\n   conda install gcc\n   conda install -c r r=3.4.1\n   conda install -c bioconda bioconductor-annotationdbi bioconductor-geometadb\n   conda install -c r r-devtools\n\nSince there is currently bug with bioconductor-sradb, we will install it from github\n\n.. code-block:: bash\n\n   git clone https://github.com/seandavi/SRAdb\n   cd SRAdb\n\nRun `R`, and install SRAdb within `R` use `devtools`\n\n.. code-block:: r\n\n   library(devtools)\n   devtools::install(\".\")\n\n\nFeatures\n--------\n\nSee: http://saketkc.github.io/riboraptor/cmd-manual.html\n\n\n\n\n=======\nHistory\n=======\n\n0.2.0 (04-23-2018)\n------------------\n\n* First release on PyPI.\n\n\n",
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