============
Installation
============

The scripts hereby reported do not need any installation once the
dependencies are installed.

All the R and python libraries can be installed running the
"install_deps.sh" script


Software Versions
-----------------

* R: The version 3.4.1 "Single Candle" was used for the development
  but all 3* should be allright.
* Python: the version 3.5.2 was used for the development.

R Packages Needed
-----------------

* `ballgown <http://bioconductor.org/packages/release/bioc/html/ballgown.html>`_

* `dplyr <https://cran.r-project.org/web/packages/dplyr/README.html>`_

* `genefilter <http://bioconductor.org/packages/release/bioc/html/genefilter.html>`_

* `ggplot2 <http://ggplot2.org/>`_

* `igraph <http://igraph.org/r/>`_

* `shiny <https://www.rstudio.com/products/shiny/>`_ 

* `WGCNA
  <https://labs.genetics.ucla.edu/horvath/CoexpressionNetwork/Rpackages/WGCNA/>`_:
  is necessary for running coexpression analyses
  
Python Packages Needed
----------------------

* `rpy2 <https://pypi.python.org/pypi/rpy2>`_