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Update README.md
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gmcvicker committed Apr 26, 2016
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Expand Up @@ -59,17 +59,23 @@ The easiest way to install [HDF5](https://www.hdfgroup.org/HDF5/),
[numpy](http://www.numpy.org), [scipy](http://scipy.org) and
[Pytables](http://www.pytables.org/) is to download and install
[Anaconda](http://continuum.io/downloads). *Installing Anaconda is
highly recommended.* After installing Anaconda, the only dependency
that must be downloaded and installed is
[pysam](https://github.com/pysam-developers/pysam).
highly recommended.* After installing Anaconda, configure [Bioconda] (https://bioconda.github.io/)
and do `conda install pysam`, or download and install
[pysam](https://github.com/pysam-developers/pysam) directly.


## Installation

1. Download and install [Anaconda](http://continuum.io/downloads),
(or download and install Numpy, Scipy, HDF5, and Pytables separately).

2. Download and install [pysam](https://github.com/pysam-developers/pysam)
2. Configure Bioconda and install pysam:

conda config --add channels r
conda config --add channels bioconda
conda install pysam
Alternatively, download and install [pysam](https://github.com/pysam-developers/pysam)
yourself.

3. Make sure that the HDF5 library is in your library path. For example
on Linux or OSX you can add the following to your .bashrc or .profile (replace
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