Re: [R] Need help for SVM code for microarray classification

From: Steve Lianoglou <mailinglist.honeypot_at_gmail.com>
Date: Mon, 28 Jun 2010 23:09:40 -0400

Hi,

On Mon, Jun 28, 2010 at 9:55 PM, Aadhithya <sistaadhi_at_gmail.com> wrote:
>
> Hi I am Aadhithya I am trying to write a code to classify microarray data
> (AML and ALL) using SVM in R
> my code goes like this :
> library(e1071)
> train<-read.table("Z:/Documents/train.txt",header=T);
> test<-read.table("Z:/Documents/test.txt",header=T);
> cl <- c(c(rep("ALL",10), rep("AML",10)));
> model<- svm(train,cl);
> pred <- predict(model,t(test));
> table(pred,t(cl));
>
> But I am not able to run it its giving me error . I will be really grateful
> if someone can help me.Thanks in advance

  1. Please give the error that it's giving you
  2. Are the number of features/columns in your training and testing matrices the same? Remember that like most other model-building-type functions in R, the rows of the data represent the different observations, and the columns of the data represent the different features/dimensions/predictor-variabls of each observation.
-- 
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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Received on Tue 29 Jun 2010 - 03:11:34 GMT

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