Novel Case: Handling sub-transcript case where all of the query exons match a transcript, but query has fewer exons

[dewyman]

Case: c13526/f1p3/2925 (INPP5B)
Because the query transcript is shorter than the annotated ones, it is impossible to tell which isoform it came from. But more importantly than that, we need to make sure that we don't label this as (completely) known.

[dewyman]

Now that I'm working on novel transcripts, I need to determine how to label this case as a novel transcript that is a sub-transcript of something known

[dewyman]

Solution: MatchTracker class that manages full and partial matches to known transcripts.