Download
========

Source Code
^^^^^^^^^^^
JOA is an open source code project. 
You can browse and download JOA source code from `github <https://github.com/burcakotlu/JOA>`_ and run it as a Java project. 


Executable Jar
^^^^^^^^^^^^^^
You can download JOA executable jar `joa.jar <http://burcak.ceng.metu.edu.tr/joa/>`_  and run it.


Sample BED Files
^^^^^^^^^^^^^^^^
You can download sample BED files and run JOA with them.

.. Download GLANET data from `here <https://drive.google.com/open?id=0BwmVAJuppNSMX3hfUnJPc18yNU0&usp=sharing>`_
.. Download GLANET data without GC and Mappability matching from `here <https://drive.google.com/open?id=0BwmVAJuppNSMRi14MDhQTlZMb1U=sharing>`_

+------------------------------+------------------------------------------------------------------------------------------------------+
| Explanation                  | Sample BED Files (tar.gz)                                                                            |
+==============================+======================================================================================================+
| Download sample BED files    |`simulated_data.tar.gz <http://burcak.ceng.metu.edu.tr/joa/>`_                                        |
|                              |                                                                                                      | 
|                              |`fAdrenal-DS12528.hotspot.twopass.fdr0.05.merge.bed <http://burcak.ceng.metu.edu.tr/joa/>`_           |
|                              |                                                                                                      |
|                              |`fAdrenal-DS15123.hotspot.twopass.fdr0.05.merge.bed <http://burcak.ceng.metu.edu.tr/joa/>`_           |
|                              |                                                                                                      |
|                              |`fAdrenal-DS17319.hg19.hotspot.twopass.fdr0.05.merge.bed <http://burcak.ceng.metu.edu.tr/joa/>`_      |
|                              |                                                                                                      |
|                              |`fAdrenal-DS17677.hg19.hotspot.twopass.fdr0.05.merge.bed <http://burcak.ceng.metu.edu.tr/joa/>`_      |
|                              |                                                                                                      |
|                              |`fAdrenal-DS20343.hg19.hotspot.twopass.fdr0.05.merge.bed <http://burcak.ceng.metu.edu.tr/joa/>`_      |
+------------------------------+------------------------------------------------------------------------------------------------------+