Boxplot for Raw Data
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@shawinkarim-8758
Last seen 7.1 years ago
United Kingdom

Iam trying to plot a raw Microarray Data and it is affy using box plot , 

I read the data then plot it using the code bellow:

    CuCelfiles<-list.celfiles(full.names=TRUE)
    CuCelfiles
    data<-read.celfiles(CuCelfiles, pkgname="pd.hugene.1.0.st.v1")
    # The box plot dispaly unorganize name of cel file 
    boxplot(data)
    CuNorm<-rma(CuCelfiles)

I would like change the name of cell fise instead of GSE12345 to H1 , i could not do that , i tried to write data to csv but it does not work ? Any help please

r • 1.3k views
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rreck ▴ 20
@rreck-12488
Last seen 5.7 years ago
Fairfax County, VA

It looks like you might try something like:

boxplot(data, lnames = c(“H1”))

borrowed from https://www.r-bloggers.com/box-plot-with-r-tutorial/

write.csv(data, file = "MyData.csv")

borrowed from http://rprogramming.net/write-csv-in-r/

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@ Rreck  I tried 

write.csv(data, file = "MyData.csv")  but Iam receiving the following error:

Error in as.data.frame.default(x[[i]], optional = TRUE) : 
  cannot coerce class "structure("ExpressionFeatureSet", package = "oligoClasses")" to a data.frame

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I am not sure if you need a csv. sometimes i use this approach to save, move and load data when I have trouble like you are showing. http://www.fromthebottomoftheheap.net/2012/04/01/saving-and-loading-r-objects/

 

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