Open sagnikbanerjee15 opened 6 years ago
Hello,
I was wondering if there is a way to find novel transcripts solely from the stringtie gtf file output? I was looking at the output and I found some of the transcripts do not have a corresponding "reference_id". Is it correct to consider them as novel transcripts? I also noticed that stringtie produces novel isoforms. I found a gene STRG.8 which was reported to have 3 isoforms. Stringtie could find references for only two isoforms out of the reported 3 isoform. Is this behavior common?
Thank you.
Hello Sagnik, I also have the same question. If you came to any conclusions, could you please share your insights? Thanks a lot
Hi @pariyamd,
Unfortunately, I do not have an answer for you. We decided to use a different assembler for our work.
Thank you.
Hello,
I was wondering if there is a way to find novel transcripts solely from the stringtie gtf file output? I was looking at the output and I found some of the transcripts do not have a corresponding "reference_id". Is it correct to consider them as novel transcripts? I also noticed that stringtie produces novel isoforms. I found a gene STRG.8 which was reported to have 3 isoforms. Stringtie could find references for only two isoforms out of the reported 3 isoform. Is this behavior common?
Thank you.