MOVED old testfiles to separate directory
Merge branch 'develop' into trimming
ADDED trimming skeleton
MASTER script rewrite setup
DEVELOP alternative master script to call the pipeline (in python for added flexibility)
RESTORED original path of former master script
ADDED trimmomatic adapter trimming (with auto PESE detection) FILTERING OPTIONS HARDCODED!!!
ADDED new master workflow (mp)
ADDED unified novoalign script (with auto PE/SE detection, illumina only)
ADDED prototype script for stampy aligner
ADDED platypus mapping
MOD mapping scripts (universal, to be adapted)
Merge branch 'molpath' into ngsmaster
Merge branch 'ngsmaster' of https://github.com/KHP-Informatics/ngs into dev
ngsmaster