eXpress tool added.
DESeq2 script modified to handle more than two sample groups
Added new parameter do deseq-exon-count defining the sort order
trimmomatic
trimmomatic
Merge branch 'master' of https://github.com/chipster/chipster.git
dexseq-exoncount fixed and added normalize-counts script
Merge branch 'master' of https://github.com/chipster/chipster.git
DEXseq to R-3.0
Merge branch 'master' of https://github.com/chipster/chipster.git

Conflicts:
	src/main/modules/ngs/ngs-module.xml
duplicate phenodata names fixed
trimmomatic manual
Merge branch 'master' of https://github.com/chipster/chipster.git
Corrected the -a option in Bowtie2
New eXpress tool for quantifying gene expression at transcript level.
Merge branch 'master' of https://github.com/chipster/chipster.git
Typo fix.
Added todo for manager backup creation
Disable tools with non-unique filenames
Merge branch 'master' of https://github.com/chipster/chipster.git