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  • isoform lengths to gene length

    Hello everybody,

    I was wondering if it was possible, from a list of its isoform lengths to calculate the gene length. I know RSEM is doing it, but I wouldn't want to run another pipeline...
    Here is the deal :

    length
    isoform1 994
    isoform2 1723
    isoform3 2214

    RSEM gives, from these 3 isoforms:

    length
    gene 1714.64

    I have already organized lists of isoforms. So it is pretty easy to gather them together into genes. I did that to get gene abundances from the isoforms abundance, but I am stuck with the gene lengths. Is there an easy way of calculating it?

    here is what I found on the web :
    "The classic way as defined in [MWM+08] takes the number of bases that
    is covered by at least one isoform of that gene. Alternatively, the average isoform length of a gene can be used. As a third option, the RSEM read assignment on isoform level can be used to calculate the gene length as a weighted average of isoform length."

    Thanks!!

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