Hello. We ran StringTie and then used prepDE3.py to get the gene counts and are seeing cases like the following where the gene id from the reference genome is mapped to 2 novel genes found by StringTie.
MSTRG.1|Zm00001d027230
MSTRG.2|Zm00001d027230
This is giving us 2 different sets of expression calls for the gene Zm00001d027230. We want only 1 set of expression calls for Zm00001d027230. It'd be fine if the gene was named like MSTRG.1|MSTRG.2|Zm00001d027230. Can you help with this issue?
Hello. We ran StringTie and then used prepDE3.py to get the gene counts and are seeing cases like the following where the gene id from the reference genome is mapped to 2 novel genes found by StringTie.
MSTRG.1|Zm00001d027230 MSTRG.2|Zm00001d027230
This is giving us 2 different sets of expression calls for the gene Zm00001d027230. We want only 1 set of expression calls for Zm00001d027230. It'd be fine if the gene was named like MSTRG.1|MSTRG.2|Zm00001d027230. Can you help with this issue?
Thanks, Julie