This has not been tested.
Also prepared testing mapping parameters.
These reads are then merged with "noadapt". Also added mapping parameters for "noadapt" reads.
Read size classes have been assigned bowtie2 mapping settings based on the results of mapping benchmarks.
The README now mentions the example configuration files and the genome preparation workflow.
Paths to wrappers became relative paths. This reverts commit d43d2aa7.
Old category "siRNA" disappeared, and this was just issuing a warning with earlier versions of pandas.
