Hi Steve,
Thank you so much for your reply.
I’m attaching the dataset and this is my code:
library(e1071)
mydata <- as.matrix(read.delim("iris.txt"))
train.x <- mydata[,-1]
train.y <- mydata[,1]
mymodel <- svm(train.x, train.y, cross=3, type="C-classification")
Could you please try it and try it with the attached dataset? I tried it with
different datasets and the problem remains.
Cheers,
Amy
> Date: Mon, 22 Feb 2010 10:02:31 -0500
> Subject: Re: [R] svm
> From: mailinglist.honey...@gmail.com
> To: amy_4_5...@hotmail.com
> CC: r-help@r-project.org
>
> Hi Amy,
>
> On Sat, Feb 20, 2010 at 9:29 PM, Amy Hessen <amy_4_5...@hotmail.com> wrote:
> > Hi ,
> >
> > Could you please help me in this question:?
> >
> > After trying this code:
> >
> > library(e1071)
> > mydata <- as.matrix(read.delim("iris.txt"))
> > train.x <- mydata[,-1]
> > train.y <- mydata[,1]
> > mymodel <- svm(train.x, train.y, cross=3, type="C-classification")
> >
> > I receive this error:
> >
> > Error in colMeans(x, na.rm = TRUE) : 'x' must be numeric
> >
> > I put the class label in the first column.
>
> I think you would be able to find out where many of your problems lie
> if you try to provide a reproducible example we can use to test:
> meaning, something I can just copy from your email and paste into my R
> workspace that would reproduce your problem.
>
> The error is telling you that something is expecting "x" to be
> numeric, and it's not. So the question is, what isn't "numeric"? I
> guess the answer must be in one of the two arguments you supply to the
> svm function, so can you please check to see what "type" of arguments
> you are passing into your function?
>
> You can do that by running these R commands?
>
> R> is(mydata)
> R> is(train.x)
> R> is(train.y)
>
> What do you get from that?
>
> -steve
>
> --
> Steve Lianoglou
> Graduate Student: Computational Systems Biology
> | Memorial Sloan-Kettering Cancer Center
> | Weill Medical College of Cornell University
> Contact Info: http://cbio.mskcc.org/~lianos/contact
_________________________________________________________________
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class sepallength sepalwidth petallength petalwidth
Iris-setosa 5.1 3.5 1.4 0.2
Iris-setosa 4.9 3 1.4 0.2
Iris-setosa 4.7 3.2 1.3 0.2
Iris-setosa 4.6 3.1 1.5 0.2
Iris-setosa 5 3.6 1.4 0.2
Iris-setosa 5.4 3.9 1.7 0.4
Iris-setosa 4.6 3.4 1.4 0.3
Iris-setosa 5 3.4 1.5 0.2
Iris-setosa 4.4 2.9 1.4 0.2
Iris-setosa 4.9 3.1 1.5 0.1
Iris-setosa 5.4 3.7 1.5 0.2
Iris-setosa 4.8 3.4 1.6 0.2
Iris-setosa 4.8 3 1.4 0.1
Iris-setosa 4.3 3 1.1 0.1
Iris-setosa 5.8 4 1.2 0.2
Iris-setosa 5.7 4.4 1.5 0.4
Iris-setosa 5.4 3.9 1.3 0.4
Iris-setosa 5.1 3.5 1.4 0.3
Iris-setosa 5.7 3.8 1.7 0.3
Iris-setosa 5.1 3.8 1.5 0.3
Iris-setosa 5.4 3.4 1.7 0.2
Iris-setosa 5.1 3.7 1.5 0.4
Iris-setosa 4.6 3.6 1 0.2
Iris-setosa 5.1 3.3 1.7 0.5
Iris-setosa 4.8 3.4 1.9 0.2
Iris-setosa 5 3 1.6 0.2
Iris-setosa 5 3.4 1.6 0.4
Iris-setosa 5.2 3.5 1.5 0.2
Iris-setosa 5.2 3.4 1.4 0.2
Iris-setosa 4.7 3.2 1.6 0.2
Iris-setosa 4.8 3.1 1.6 0.2
Iris-setosa 5.4 3.4 1.5 0.4
Iris-setosa 5.2 4.1 1.5 0.1
Iris-setosa 5.5 4.2 1.4 0.2
Iris-setosa 4.9 3.1 1.5 0.1
Iris-setosa 5 3.2 1.2 0.2
Iris-setosa 5.5 3.5 1.3 0.2
Iris-setosa 4.9 3.1 1.5 0.1
Iris-setosa 4.4 3 1.3 0.2
Iris-setosa 5.1 3.4 1.5 0.2
Iris-setosa 5 3.5 1.3 0.3
Iris-setosa 4.5 2.3 1.3 0.3
Iris-setosa 4.4 3.2 1.3 0.2
Iris-setosa 5 3.5 1.6 0.6
Iris-setosa 5.1 3.8 1.9 0.4
Iris-setosa 4.8 3 1.4 0.3
Iris-setosa 5.1 3.8 1.6 0.2
Iris-setosa 4.6 3.2 1.4 0.2
Iris-setosa 5.3 3.7 1.5 0.2
Iris-setosa 5 3.3 1.4 0.2
Iris-versicolor 7 3.2 4.7 1.4
Iris-versicolor 6.4 3.2 4.5 1.5
Iris-versicolor 6.9 3.1 4.9 1.5
Iris-versicolor 5.5 2.3 4 1.3
Iris-versicolor 6.5 2.8 4.6 1.5
Iris-versicolor 5.7 2.8 4.5 1.3
Iris-versicolor 6.3 3.3 4.7 1.6
Iris-versicolor 4.9 2.4 3.3 1
Iris-versicolor 6.6 2.9 4.6 1.3
Iris-versicolor 5.2 2.7 3.9 1.4
Iris-versicolor 5 2 3.5 1
Iris-versicolor 5.9 3 4.2 1.5
Iris-versicolor 6 2.2 4 1
Iris-versicolor 6.1 2.9 4.7 1.4
Iris-versicolor 5.6 2.9 3.6 1.3
Iris-versicolor 6.7 3.1 4.4 1.4
Iris-versicolor 5.6 3 4.5 1.5
Iris-versicolor 5.8 2.7 4.1 1
Iris-versicolor 6.2 2.2 4.5 1.5
Iris-versicolor 5.6 2.5 3.9 1.1
Iris-versicolor 5.9 3.2 4.8 1.8
Iris-versicolor 6.1 2.8 4 1.3
Iris-versicolor 6.3 2.5 4.9 1.5
Iris-versicolor 6.1 2.8 4.7 1.2
Iris-versicolor 6.4 2.9 4.3 1.3
Iris-versicolor 6.6 3 4.4 1.4
Iris-versicolor 6.8 2.8 4.8 1.4
Iris-versicolor 6.7 3 5 1.7
Iris-versicolor 6 2.9 4.5 1.5
Iris-versicolor 5.7 2.6 3.5 1
Iris-versicolor 5.5 2.4 3.8 1.1
Iris-versicolor 5.5 2.4 3.7 1
Iris-versicolor 5.8 2.7 3.9 1.2
Iris-versicolor 6 2.7 5.1 1.6
Iris-versicolor 5.4 3 4.5 1.5
Iris-versicolor 6 3.4 4.5 1.6
Iris-versicolor 6.7 3.1 4.7 1.5
Iris-versicolor 6.3 2.3 4.4 1.3
Iris-versicolor 5.6 3 4.1 1.3
Iris-versicolor 5.5 2.5 4 1.3
Iris-versicolor 5.5 2.6 4.4 1.2
Iris-versicolor 6.1 3 4.6 1.4
Iris-versicolor 5.8 2.6 4 1.2
Iris-versicolor 5 2.3 3.3 1
Iris-versicolor 5.6 2.7 4.2 1.3
Iris-versicolor 5.7 3 4.2 1.2
Iris-versicolor 5.7 2.9 4.2 1.3
Iris-versicolor 6.2 2.9 4.3 1.3
Iris-versicolor 5.1 2.5 3 1.1
Iris-versicolor 5.7 2.8 4.1 1.3
Iris-virginica 6.3 3.3 6 2.5
Iris-virginica 5.8 2.7 5.1 1.9
Iris-virginica 7.1 3 5.9 2.1
Iris-virginica 6.3 2.9 5.6 1.8
Iris-virginica 6.5 3 5.8 2.2
Iris-virginica 7.6 3 6.6 2.1
Iris-virginica 4.9 2.5 4.5 1.7
Iris-virginica 7.3 2.9 6.3 1.8
Iris-virginica 6.7 2.5 5.8 1.8
Iris-virginica 7.2 3.6 6.1 2.5
Iris-virginica 6.5 3.2 5.1 2
Iris-virginica 6.4 2.7 5.3 1.9
Iris-virginica 6.8 3 5.5 2.1
Iris-virginica 5.7 2.5 5 2
Iris-virginica 5.8 2.8 5.1 2.4
Iris-virginica 6.4 3.2 5.3 2.3
Iris-virginica 6.5 3 5.5 1.8
Iris-virginica 7.7 3.8 6.7 2.2
Iris-virginica 7.7 2.6 6.9 2.3
Iris-virginica 6 2.2 5 1.5
Iris-virginica 6.9 3.2 5.7 2.3
Iris-virginica 5.6 2.8 4.9 2
Iris-virginica 7.7 2.8 6.7 2
Iris-virginica 6.3 2.7 4.9 1.8
Iris-virginica 6.7 3.3 5.7 2.1
Iris-virginica 7.2 3.2 6 1.8
Iris-virginica 6.2 2.8 4.8 1.8
Iris-virginica 6.1 3 4.9 1.8
Iris-virginica 6.4 2.8 5.6 2.1
Iris-virginica 7.2 3 5.8 1.6
Iris-virginica 7.4 2.8 6.1 1.9
Iris-virginica 7.9 3.8 6.4 2
Iris-virginica 6.4 2.8 5.6 2.2
Iris-virginica 6.3 2.8 5.1 1.5
Iris-virginica 6.1 2.6 5.6 1.4
Iris-virginica 7.7 3 6.1 2.3
Iris-virginica 6.3 3.4 5.6 2.4
Iris-virginica 6.4 3.1 5.5 1.8
Iris-virginica 6 3 4.8 1.8
Iris-virginica 6.9 3.1 5.4 2.1
Iris-virginica 6.7 3.1 5.6 2.4
Iris-virginica 6.9 3.1 5.1 2.3
Iris-virginica 5.8 2.7 5.1 1.9
Iris-virginica 6.8 3.2 5.9 2.3
Iris-virginica 6.7 3.3 5.7 2.5
Iris-virginica 6.7 3 5.2 2.3
Iris-virginica 6.3 2.5 5 1.9
Iris-virginica 6.5 3 5.2 2
Iris-virginica 6.2 3.4 5.4 2.3
Iris-virginica 5.9 3 5.1 1.8
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