Entering edit mode
3.6 years ago
akakeiji1108
•
0
Hello, I'm trying to run stringtie , and I'm getting the following error: Error parsing feature score from GFF line: MAT1-1rose external CDS 1 12461 . + 0 gene_id "MAT1.1rose.g";transcript_id "MAT1.1rose.t";gene_name "MAT1.1rose.1";
My stringtie command:
stringtie -f 0.3 MAT1-m1r.sort.bam -G m1r_code.gtf -p 1 -o ./assembly/MAT1-m1r.gtf
The content of the gtf look like this:
MAT1-1rose external exon 1 12461 . + . gene_id "MAT1.1rose.g";transcript_id "MAT1.1rose.t";gene_name "MAT1.1rose.1";
MAT1-1rose external CDS 1 12461 . + 0 gene_id "MAT1.1rose.g";transcript_id "MAT1.1rose.t";gene_name "MAT1.1rose.1";
The reference genome fasta just has only 1 sequence.
I can't see any inconsistency in my case. I'm stumped. I really, really hope someone can help!
