Annotations on the read mappings
It can be very handy to see annotations reflecting the various steps in the transcript discovery directly in the read mapping view. An example is shown in figure 3.10
Figure 3.12: All the annotations showing final predictions and the intermediate events.
There are different kinds of annotations shown:
- Event
- An 'Event' annotation is added for each event that is used in the graph building procedure in the step Predicting transcript annotations.
- Event (filtered)
- An 'Event (filtered)' annotation is added for each event that was filtered in the step Filter events.
- Event region (filtered)
- An 'Event region (filtered)' annotation is added for each gene region that was filtered in the step Identifying genes.
- Predicted gene
- A 'Predicted gene' annotation is added for each predicted gene (that is, for each gene region that passed the filter in the Identifying genes step.
- Predicted mRNA
- A 'Predicted mRNA' annotation is added for each predicted transcript for the predicted genes.