Improve samplesheet generation #272
Description
Description of feature
It's great that the pipeline can generate samplesheets for downstream pipelines automatically.
I suggest the following improvements:
- always generate all types of samplesheets. It's computationally cheap, it saves one pipeline parameter, and sometimes the data can be used for multiple pipelines (e.g. rnafusion + rnaseq)
- allow to explicitly set the strandedness for rnaseq samplesheets. It's currently always 'auto', but I'd like to set it explicitly to
reversefor Illumina libraries.
Something we could also discuss at some later point is to carry on information from the demux samplesheet to the generated samplesheets, e.g. additional columns from the [Data] section could be added to the generated samplesheets.