Merge pull request #1096 from maxplanck-ie/develop

* QC in the ChIPseq workflow is now performed with the ChIPQC R package
* added allelic-whatshap mode to mRNA seq
* fixes #1048
* fixes #1085
* fixes #1083
* fixes #1082
* fixes #1063
* fixes #1058
* fixes #1024
* fixes minor issues with mRNAseq allelic-whatshap mode

Merge pull request #1073 from maxplanck-ie/develop

3.1.0

Merge pull request #1041 from maxplanck-ie/develop

3.0.0

Merge pull request #1005 from maxplanck-ie/develop

Develop

Merge pull request #1005 from maxplanck-ie/develop

Develop

Merge pull request #987 from maxplanck-ie/develop

Include the news for 2.8.1

Merge pull request #977 from maxplanck-ie/develop

Develop

Merge pull request #971 from maxplanck-ie/develop

Develop

copy the fixes and bump the bugfix version

Merge pull request #882 from maxplanck-ie/develop

bumped bugfix version