CHANGES IN VERSION 1.11.1
-------------------------
    * fixed unit test for plotting without replicates as DESeq2 no longer
      supports silentl treating as replicates since version 1.22

CHANGES IN VERSION 1.7.2
-------------------------
    * added  betaPrior = TRUE to nbinomWaldTest in order to keep the 
      shrinkage of the log2 fold changes. (The shrinkage is now disabled by 
      default in DESeq2)  
    * Changed R dependency to R 3.4
    * Added WholeGenome Bioc View

CHANGES IN VERSION 1.7.1
-------------------------
    * extended the importing section in the vignette a little bit
    * fixed the robust mean function so that now plotting also works without replicates
    * new function robust_mean that is used in plotting
    * when importing matrices, it is now checked that their column names correspond to 
      the sample IDs given

CHANGES IN VERSION 1.3.3
-------------------------

    * updated CITATION file to point to the published paper

CHANGES IN VERSION 1.3.2
-------------------------
    
    * Bioc 3.4 devel version

CHANGES IN VERSION 1.1.8
-------------------------

    * summarizeCountsPerPosition has been improved and erroneously hard-coded 
    options can now be actually set. This improved version was developed by
    Sebastian Gibb (http://sebastiangibb.de/).

CHANGES IN VERSION 1.1.7
-------------------------

    * added new function importData_soGGi to import .bam files in R directly 

CHANGES IN VERSION 1.1.6
-------------------------

    * added CITATION file containing the information on the PeerJ preprint 
    
BUG FIXES

    * added require(mgcv) to the examplse from  from plotProfiles to pass the check() from devtools
    * also added mgcv to suggests

CHANGES IN VERSION 1.1.5
-------------------------

BUG FIXES

    * bug fixes by Hervé Pages


CHANGES IN VERSION 1.1.4
-------------------------

BUG FIXES

    * bug fixes by Hervé Pages

CHANGES IN VERSION 1.1.3
-------------------------

BUG FIXES

    * fixed a wrong preview of the sample annotation table in the vignette 
    * fixed a wrong reference in the runTesting function help
    * made small changes to the export statement in the roxygen docs

CHANGES IN VERSION 1.1.2
-------------------------

BUG FIXES

    * changed the bibliography to a standard rmarkdown one. This should
    fix the vignette compilation problem.

CHANGES IN VERSION 1.1.1
-------------------------

BUG FIXES

    * fixed a literature query in the vignette that tried
    to resolve a DOI via knitcitations::citep()  and would often
    lead to a compilation error on the Bioconductor servers.

CHANGES IN VERSION 1.1.0
-------------------------

    * initial Bioc devel release



