Code refactoring

[marc-sturm]

• [x] remove parameter '--folderWithScript'
• [x] refactor code to split germline from somatic analysis (put it into the germline folder)
• [x] rename script to something else than firstStep.R, perhaps clincnv.R
• [ ] add example data for each use-case => use as unit tests
• [x] check minimum version of R (3.2)