I am using the following command which already explained in the nature protocol paper
stringtie –e –B -p 8 -G stringtie_merged.gtf -o ballgown/WS021/WS021.gtf Bam/WS021.bam
The issue it gave me the following error
Error: input file –e cannot be found!
However, when I delete -e and -B options, it run fine. Can anyone explain for me the problem? I appreciate your time and help