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Old 01-26-2015, 06:35 AM   #1
alan_sm
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Location: USA

Join Date: Sep 2012
Posts: 3
Default Answered: Binning expression data along with capturing gene identifiers

Got the answer from Bioconductor support
Thanks to johannes.rainer
https://support.bioconductor.org/p/64409/#64433

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 at 09:34 AM. Reason: Got the answer from Bioconductor support
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