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  • krause007
    started a topic Goseq analysis on Arabidopsis

    Goseq analysis on Arabidopsis

    Hello,
    I'm trying to run the goseq on a not supported organism but unfortunately I already stuck for a while with the nullp function...
    I have my DE genes in a vector:
    head(degenes)

    AT1G21660 AT1G11310 AT1G06220 AT1G01010 AT1G01020 AT1G01030
    1 0 0 0 0 0

    and also my gene_length:

    head(gene_length)
    AT1G21660 AT1G11310 AT1G06220 AT1G01010 AT1G01020 AT1G01030
    3366 3447 4909 2268 2809 2065

    if I run now the nullp function:
    pwf<-nullp(degenes,bias.data=gene_length)
    Error in if (hi <= low) { : missing value where TRUE/FALSE needed

    Its not too good explained in the goseq manual so I hope anybody can help me.
    Cheers,
    Julian

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    New and advanced multiomics tools and technologies have opened new avenues of research and markedly enhanced various disciplines such as disease research and precision medicine1. The practice of merging diverse data from various ‘omes increasingly provides a more holistic understanding of biological systems. As Maddison Masaeli, Co-Founder and CEO at Deepcell, aptly noted, “You can't explain biology in its complex form with one modality.”

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