Re: [R] Problem with rowMeans()

From: Erik Iverson <iverson_at_biostat.wisc.edu>
Date: Thu, 12 Jun 2008 16:18:00 -0500

ss wrote:
> Dear Erik,
>
> Thanks! The 'data' is matrix but all(apply(data[,3:85], 2, class) ==
> "numeric")
> is false.
>
> > class(data)
> [1] "matrix"
> > a<- rowMeans(data[,3:85],na.rm = TRUE)
> Error in rowMeans(data[, 3:85], na.rm = TRUE) : 'x' must be numeric
> > all(apply(data[,3:85], 2, class) == "numeric")
> [1] FALSE
> >
>
> What else should I do?

try str(data) , do you have a character matrix? That would explain the error message.

I would consider storing your data in a data.frame, as you appear not to have homogeneous types, and then your analysis should be trivial.

Erik

>
> I appreciate!
>
> Allen
>
>
>
> On Thu, Jun 12, 2008 at 4:55 PM, Erik Iverson <iverson_at_biostat.wisc.edu
> <mailto:iverson@biostat.wisc.edu>> wrote:
>
> Hello -
>
>
> ss wrote:
>
> Hi all,
>
> I have a matrix called 'data', which looks like:
>
> data[1:4,1:4]
>
> Probe_ID Gene_Symbol M1601 M1602
> 1 A_23_P105862 13CDNA73 -1.6 0.16
> 2 A_23_P76435 15E1.2 0.18 0.59
> 3 A_24_P402115 15E1.2 1.63 -0.62
> 4 A_32_P227764 15E1.2 -0.76 -0.42
>
> dim(data)
>
> [1] 23963 85
>
>
> Do you really have a matrix, or a data.frame?
>
> Try
>
> > class(data)
>
>
>
> What I want to do is to make a new matrix called 'data2', which
> would be
> transformed
> by subtracting the mean of each row from matrix 'data'. There
> are some 'NA's
> in the
> matrix and I do want to keep it.
>
>
> See ?scale
>
>
>
> I tried to take 'mean's from each row first by using:
>
> a<- rowMeans(data[,3:85],na.rm = FALSE)
>
> but I got:
>
> a<- rowMeans(data[,3:85],na.rm = FALSE)
>
> Error in rowMeans(data[, 3:85], na.rm = FALSE) : 'x' must be numeric
>
> Can anybody suggest me how to get around this?
>
>
> Figure out what you are giving the rowMeans function.
> If you really have a matrix, then
>
> all(apply(data[,3:85], 2, class) == "numeric") should be TRUE.
>
>
>
>
> Thank you very much!
>
> Allen
>
> [[alternative HTML version deleted]]
>
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>



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https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. Received on Thu 12 Jun 2008 - 21:24:06 GMT

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