I have used cufflinks program to generate a transcripts.gtf file from my chicken RNA-seq bam files using RABT assembly.
Now, I would like to compare these transcripts against other non-refseq genes of chicken.
I searched on ucsc for non-refseq genes, but that fails to give me the organism name included in the gtf file.
My question is that, if I download the gtf file of other non-refseq and run my cuffcompare, is there a way to know the organism name somewhere downstream?
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