Mapping settings
In the next dialog, set the mapping parameters (figure 33.50).
Figure 33.50: Define mapping settings for RNA-Seq Analysis for Long Reads.
The generic mapping parameters are identical to those applied for Map Long Reads to Reference, see Map Long Reads to Reference.
In addition, the following RNA-Seq specific setting is available:
- Maximum number of hits for a read. Reads mapping equally well to more places than this number will be ignored. If a read matches to multiple distinct places, but less than or equal to the specified maximum number, it will be assigned to one of these places by the EM algorithm.