Stringtie does not work with NCBI GTF file?

Stringtie does not work with NCBI GTF file?

1

Hi all,

I wanted to rerun my DGE analysis to see if there were any differences between HTseq-count -> edgeR and StringTie-Ballgown.

However, when I tried to run my stringtie command using the same BAM file, I got an error: “Error: no valid ID found for GFF record”

I think I read somewhere that Stringtie only likes Ensembl gtfs, I was wondering if one of you can confirm this. My previous DGE analysis was performed using reference genome from NCBI.


Stringtie


DGE

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