Cuffquant and Cuffnorm: merged.gtf or genes.gtf

Hi all,

I was wondering if it is best to use merged.gtf (from cuffmerge) or genes.gtf as annotation files for cuffquant and cuffnorm?

It would be nice to hear the rational for choosing one over the other.

Thank you!

rna-seq sequencing rna-seq tuxedo

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written 9.4 years ago by biopat •

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