The main results of the RNA-Seq analysis are two expression tracks (one for gene-level and one for transcript-level expression) and a mapping track. In addition, the following optional results can be selected:
- Create list of unmapped reads. Creates a list of the reads that either did not map to the reference at all or that were non-specific matches with more placements than specified (see Defining mapping options for RNA-Seq).
- Create report. Creates a report of the results. See RNA-Seq report below for a description of the information contained in the report.
- Create fusion gene table. An option that is enabled when using paired data. Creates a table that lists potential fusion genes. This, along with the Minimum read count, is described further below in section Gene fusion reporting.