RNA-Seq DEGenes Without GTF
I am working a specific species where we have a reference genome, and I was able to align our RNA-seq data to it. However, I am looking to create a count table to funnel our dataset to edgeR for DE analysis. I don’t have a GTF to use with something like HTSeq. Anybody have an idea of how to proceed?
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It's a species that has a reference genome but that is not well annotated in terms of gene expression? If that is the case, I would have done:
Valeu, cara!