Tools:

 - Moved stript to make a chimeric junction matrix containing chimeric junctions from more than one RNA-Seq sample

 Please enter the commit message for your changes. Lines starting
Tools.

 - Added Emilios script to check the quality offset of a RNA-Seq dataset
Tools:

 - Added stript to make a chimeric junction matrix containing chimeric junctions from more than one RNA-Seq sample.
Tools:
 - Added Emilios script to check what kind of protocol was used to make the sequencing library. Important
 because the directionality of the reads will depend on it.
Documentation. Changed sphinx theme to use readthedocs template
Documentation:

 - Added the files with the different sections.
 - Some of them are empty: downloads, how_ChimPipe_works but the others
 are already in process: installation and manual.