Do I need to only keep exon in gene GTF when I run Cuffdiff?
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7.8 years ago
bxia ▴ 180

Do I need to only keep exon in gene GTF when I run Cuffdiff?

if I don't remove CDS etc,., will it cause problem?
RNA-Seq • 1.2k views
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7.8 years ago

I do not remember having problems with this. I believe I tried with cds, mRNA and genes alongside exons. Do you get different results with and without CDS in GTF?
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I am completely not sure, I just find some command and realize people use exon only GTF to map.

Haven't try that yet.

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