Dear all,

thanks for giving me hope :) ;)
can amy one just tell me to plot the svm model i need to plot 2 vaiables as
y axis and x axis....but according to the nature of my dataset i have about
2000 variables?? does that mean i have to plot only two?? or is there a way
to plot all of the 2000 and show how the svm model classify the dataset.


On Mon, Jun 17, 2013 at 11:43 PM, David Carlson <dcarlson@tamu.edu> wrote:

> It cannot be done because there is not enough time to create the
> plot. In about a billion years the sun will be 10% brighter than
> today and the oceans will start to boil away. You will still be
> plotting genes when that happens.
>
> :-(
>
> -------------------------------------
> David
>
> -----Original Message-----
> From: r-help-bounces@r-project.org
> [mailto:r-help-bounces@r-project.org] On Behalf Of Bert Gunter
> Sent: Monday, June 17, 2013 2:11 PM
> To: nofe ganmi
> Cc: r-help@r-project.org
> Subject: Re: [R] SVMREF infinte number of genes
>
> I think proving  whether P = NP would be easier than plotting an
> infinite number of genes..
>
> ;-)
>
> -- Bert
>
> On Mon, Jun 17, 2013 at 11:49 AM, nofe ganmi <nghanimi@gmail.com>
> wrote:
> > dear all,
> >
> > I am a student in cs college. I would like to know how to plot
> infinte
> > number of genes after using the svm.
> >
> > the data set i have consists of
> >
> > x which is a matrix of 39 cancer patients [rows] and 2000 gene
> names
> > [colmns]. each cell is the value of the gene for a particular
> patient.
> > there are two types of cancer people  representedas factor y.
> >
> > here is the code:
> > library(e1071)
> > #load database
> >
> > db <-
> >
> read.csv(file="databases\\colon-cancer\\colon-cancer.csv",head=FALSE
> ,sep=",")
> >
> > x = as.matrix(db[,1:(ncol(db)-1)])
> >  y = as.factor(db[,ncol(db)])
> >
> >
> >   svmModel = svm(x, y, cost = 10, cachesize=500,  scale=F,
> >  type="C-classification", kernel="linear" )
> >
> > Now how to plot this infinte number of genes after classification
> using
> > SVM???
> >
> > thanks
> >
> >         [[alternative HTML version deleted]]
> >
> > ______________________________________________
> > R-help@r-project.org mailing list
> > 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.
>
>
>
> --
>
> Bert Gunter
> Genentech Nonclinical Biostatistics
>
> Internal Contact Info:
> Phone: 467-7374
> Website:
> http://pharmadevelopment.roche.com/index/pdb/pdb-functional-groups/p
> db-biostatistics/pdb-ncb-home.htm
>
> ______________________________________________
> R-help@r-project.org mailing list
> 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.
>
>

	[[alternative HTML version deleted]]

