Entering edit mode
3.5 years ago
newbie
▴
120
Dear all,
I'm using HISAT2
for alignment and Stringtie
for assembling transcripts for each sample and then I used stringtie --merge
to merge the transcripts from all samples. In the Stringtie
step I used gencode.v19.annotation.gtf
file as reference annotation.
After the stringtie --merge
I'm interested to use gffcompare
to compare the transcripts I got with other reference annotation files from different databases.
I would like to use mitranscriptome
and lncipedia
gtfs and get the output which are not overlapped with these two gtfs using gffcompare
.
Is it possible to do with gffcompare
? How should I give the command for this?