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  • How to calculate P-value&FDR

    Hi,
    When I analyse the significance of gene expression profiles, I should calculate the P-value&FDR. But I don't know how to calculate.Grateful for answers.
    Thanks!

  • #2
    Originally posted by lynn012 View Post
    Hi,
    When I analyse the significance of gene expression profiles, I should calculate the P-value&FDR. But I don't know how to calculate.Grateful for answers.
    Thanks!
    Hi,

    If you are talking about a microarray experiment have a look at the R/Bioconductor package limma. If it is next gen data (RNAseq, Chipseq) see the packages edger or deseq. If instead you want to convert a vector of p-values to fdr values see the function p.adjust in R.

    (A suggestion... I think you should make your questions a bit more detailed for people to help!)

    Dario

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    • #3
      Dario,
      Thanks for your help and I will make my questions a bit more detailed in the future. My data is next gen data(DGE). Thanks for your timely answer and patient explaination again!

      Comment

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