Long reads technologies claim that their RNA-seq long reads are full-length transcripts, so transcript assembly is no longer needed.
I am wondering what may be the differences between long reads and transcripts: are they truly equivalent?
If I want to get transcripts (in GTF format) from long reads, what may be the possible ways to do that?
If I use reference-based transcript assemblers (such as StringTie, Cufflinks) to get transcripts from long reads, I wonder what kind of “assembly” the assembler does if the long reads are already full-length transcripts by themselves? Are the transcripts assembled by those assemblers different from the original long reads?
Your advice and suggestions would be greatly appreciated!
Thank you very much!