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  • gene FPKM from eXpress

    Hello,

    I want to calculate gene-level FPKM values from eXpress data. From eXpress output, I have FPKM values for each isoform of a gene.

    (1) Can I just sum the FPKM values for all isoforms of a given gene to get that gene's FPKM value? If not, what's the correct way to do that?

    (2) If the above-mentioned method is correct, can someone please briefly
    explain why it works?

    Any help is much appreciated.

    Thanks,
    Golsheed

  • #2
    No, it doesn't work. Please look at FPKM's formula.

    Instead, you should sum up the raw counts of your gene and then use it to calculate its FPKM.

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