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  • Binning expression data along with capturing gene identifiers

    Got the answer from Bioconductor support
    Thanks to johannes.rainer


    Hello,

    I'm using cut function to bin my expression data (FPKM) to know the
    distribution of expression in different bins and plot them. However, it
    won't capture gene identifiers of genes (row names) in different bins. I
    wonder if there is any function in one of the CRAN or Bioconductor packages or any code to do so.

    I use this for binning:
    fpkmBins <-
    table(cut(fpkm[,2],breaks=c(0,0.01,1,2,3,4,5,10,20,30,40,50,60,70,80,90,100,12000),dig.lab=5,include.lowest=TRUE,labels=c("0","<1","1-2","2-3","3-4","4-5","5-10","10-20","20-30","30-40","40-50","50-60","60-70","70-80","80-90","90-100",">100")))

    Thanks in advance .
    Alan
    Last edited by alan_sm; 01-26-2015, 09:34 AM. Reason: Got the answer from Bioconductor support

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