Open junghoon-shin opened 3 years ago
I've noticed some transcripts have negative coverage values in the output gtf file from StringTie 2.1.3b. Can this be a bug?
Below is my script.
while read bam do stringtie "$bam" \ -G reference.gtf \ -o "$bam".first.gtf done < bam_list.txt ls *.first.gtf > stringtie_first_gtf_list.txt stringtie --merge \ -p 20 \ -G reference.gtf \ -o stringtie_merged.gtf \ stringtie_first_gtf_list.txt while read bam do mkdir "$bam"_second stringtie "$bam" \ -A "$bam"_second/"$bam"_gene_abundance.tsv \ -B \ -e \ -G stringtie_merged.gtf \ -o "$bam"_second/"$bam".second.gtf done < bam_list.txt
I've noticed some transcripts have negative coverage values in the output gtf file from StringTie 2.1.3b. Can this be a bug?
Below is my script.