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Old 07-08-2015, 09:45 AM   #1
rondon
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Default FPKM in DESeq2 - Solved

Hi guys, I'm using DESeq2. I'd like to see the FPKM, and It should be easy as
> my_fpkm <- fpkm(dds)
But I need do merge the genes sizes data to dds, and I don't know how to do it. Can anyone help me?
I have a table with genes IDs and genes lengths.

my best regards.

Last edited by rondon; 07-09-2015 at 09:13 AM.
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Old 07-08-2015, 03:08 PM   #2
fanli
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Something like this:
Code:
mcols(dds)$basepairs <- gene_sizes[, "length"]
assuming gene_sizes is your table.
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Old 07-09-2015, 09:13 AM   #3
rondon
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That's it! Thank you very much!
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