[R] Error with KNN
Hi all
I receive this error message: Error in mymodel$MSE : $ operator is invalid
for atomic vectors
When I use KNN.
This is the code:
library(e1071)
train <- rbind(iris3[,,1], iris3[,,2], iris3[,,3])
cl <- factor(c(rep("s",50), rep("c",50), rep("v",50)))
knn.cv(train, cl, k = 3, prob = TRUE)
sqrt(mymodel$MSE)
#error message : Error in mymodel$MSE : $ operator is invalid for atomic
vectors
thanks,
Nancy
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Re: [R] Error with KNN
Hi Uwe,
Thank you for your email.
I need to compute one value indicating to the performance of knn but I dont
know anything other than MSE. Can you please tell me how I do that?
Many thanks,
Nancy
> Date: Mon, 22 Feb 2010 17:19:48 +0100
> From: lig...@statistik.tu-dortmund.de
> To: nancyada...@hotmail.com
> CC: r-help@r-project.org
> Subject: Re: [R] Error with KNN
>
>
>
> On 20.02.2010 19:10, Nancy Adam wrote:
> >
> >
> >
> > Hi all
> >
> > I receive this error message: Error in mymodel$MSE : $ operator is invalid
> > for atomic vectors
> > When I use KNN.
> > This is the code:
> >
> > library(e1071)
> > train<- rbind(iris3[,,1], iris3[,,2], iris3[,,3])
> > cl<- factor(c(rep("s",50), rep("c",50), rep("v",50)))
> > knn.cv(train, cl, k = 3, prob = TRUE)
> > sqrt(mymodel$MSE)
> > #error message : Error in mymodel$MSE : $ operator is invalid for atomic
> > vectors
> >
>
> There is no component MSE in mymodel. Hence you cannot extract it.
>
> Uwe Ligges
>
>
>
>
>
> > thanks,
> > Nancy
> >
> > _
> > Hotmail: Trusted email with powerful SPAM protection.
> >
> > [[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.
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[R] read dataset in R language.
Hi, Could you please help me in solving the following error message: Error in `[.data.frame`(mytestdata, fp_temp == 1) : undefined columns selected when I use scan instead on read.table, I reicieve this message: Error in names(ret2) <- rowns : 'names' attribute [172] must be the same length as the vector [152] Many thanks, Nancy _ [[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.
[R] read dataset in R language.
Hi all, Could you please help me in solving the following error message: Error in `[.data.frame`(mytestdata, fp_temp == 1) : undefined columns selected when I use scan instead on read.table, I reicieve this message: Error in names(ret2) <- rowns : 'names' attribute [172] must be the same length as the vector [152] Many thanks, Nancy _ [[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.
Re: [R] read dataset in R language.
Dear Phil,
Thanks for your reply.
I tried using:
But this message appears:
Error in scale(newdata[, object$scaled, drop = FALSE], center =
object$x.scale$"scaled:center", :
(subscript) logical subscript too long
I also changed the separator but did not solve the problem
many thanks,
Nancy
> Date: Tue, 15 Dec 2009 14:05:14 -0800
> From: spec...@stat.berkeley.edu
> To: nancyada...@hotmail.com
> CC: r-help@r-project.org
> Subject: Re: [R] read dataset in R language.
>
> Nancy -
> The separator in these files is the comma, not the semicolon.
> Try
>
> train = read.csv('trainingset.txt',check.names=FALSE)
> test = read.csv('testset.txt',check.names=FALSE)
>
> - Phil Spector
> Statistical Computing Facility
> Department of Statistics
> UC Berkeley
> spec...@stat.berkeley.edu
>
>
>
> On Tue, 15 Dec 2009, Nancy Adam wrote:
>
> >
> >
> > Hi all,Thanks for your reply. Sorry I did not send sufficient information
> > about my problem
I attach the two datasets that Im trying to read and
> > these are my attempts to read them:1)#train <-
> > read.table("trainingset.txt", header=TRUE, sep=";" ,fill=TRUE) #test <-
> > read.table("testset.txt", header=TRUE, sep=";" , fill=TRUE)its error
> > message is:
> > undefined columns selected2)train <- scan("trainingset.txt", sep=";"
> > ,fill=TRUE) test <- scan("testset.txt", sep=";" , fill=TRUE)
> >
> > its error message is:
> > 'names' attribute [172] must be the same length as the vector [152]
> >
> > many thanks,
> > Nancy
> > _
> >
> >
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[R] Read dataset in R language.
Hi all,
Thanks for the explanation
I got other datasets that are already used with others but I got the same
errors:
“undefined columns selected”
I attach the datasets with this email and this is the command I’m trying:
train = read.csv("trainingset.txt",check.names=FALSE)
test = read.csv("testset.txt",check.names=FALSE)
many thanks,
Nancy
_
MYCT;MMIN;MMAX;CACH;CHMIN;CHMAX;class
59;4000;12000;32;6;12;81
59;8000;16000;64;12;24;149
26;8000;24000;32;8;16;183
26;8000;32000;64;12;16;275
26;8000;32000;128;24;32;382
116;2000;8000;32;5;28;56
50;2000;32000;24;6;26;182
50;2000;32000;48;26;52;227
50;2000;32000;112;52;104;341
50;4000;32000;112;52;104;360
30;8000;64000;96;12;176;919
30;8000;64000;128;12;176;978
180;262;4000;0;1;3;24
180;512;4000;0;1;3;24
180;262;4000;0;1;3;24
180;512;4000;0;1;3;24
124;1000;8000;0;1;8;37
98;1000;8000;32;2;8;50
125;2000;8000;0;2;14;41
480;512;8000;32;0;0;47
480;1000;4000;0;0;0;25
MYCT;MMIN;MMAX;CACH;CHMIN;CHMAX;class
125;256;6000;256;16;128;199
29;8000;32000;32;8;32;253
29;8000;32000;32;8;32;253
29;8000;32000;32;8;32;253
29;8000;16000;32;8;16;132
26;8000;32000;64;8;32;290
23;16000;32000;64;16;32;381
23;16000;32000;64;16;32;381
23;16000;64000;64;16;32;749
23;32000;64000;128;32;64;1238
400;1000;3000;0;1;2;23
400;512;3500;4;1;6;24
60;2000;8000;65;1;8;70
50;4000;16000;65;1;8;117
350;64;64;0;1;4;15
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167;524;2000;8;4;15;23
143;512;5000;0;7;32;29
143;1000;2000;0;5;16;22
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143;1500;6300;0;5;32;35
143;3100;6200;0;5;20;39
143;2300;6200;0;6;64;40
110;3100;6200;0;6;64;45
320;128;6000;0;1;12;28
320;512;2000;4;1;3;21
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320;256;3000;4;1;3;22
320;512;5000;4;1;5;28
320;256;5000;4;1;6;27
25;1310;2620;131;12;24;102
25;1310;2620;131;12;24;102
50;2620;10480;30;12;24;74
50;2620;10480;30;12;24;74
56;5240;20970;30;12;24;138
64;5240;20970;30;12;24;136
50;500;2000;8;1;4;23
50;1000;4000;8;1;5;29
50;2000;8000;8;1;5;44
50;1000;4000;8;3;5;30
50;1000;8000;8;3;5;41
50;2000;16000;8;3;5;74
50;2000;16000;8;3;6;74
50;2000;16000;8;3;6;74
133;1000;12000;9;3;12;54
133;1000;8000;9;3;12;41
810;512;512;8;1;1;18
810;1000;5000;0;1;1;28
320;512;8000;4;1;5;36
200;512;8000;8;1;8;38
700;384;8000;0;1;1;34
700;256;2000;0;1;1;19
140;1000;16000;16;1;3;72
200;1000;8000;0;1;2;36
110;1000;4000;16;1;2;30
110;1000;12000;16;1;2;56
220;1000;8000;16;1;2;42
800;256;8000;0;1;4;34
800;256;8000;0;1;4;34
800;256;8000;0;1;4;34
800;256;8000;0;1;4;34
800;256;8000;0;1;4;34
125;512;1000;0;8;20;19
75;2000;8000;64;1;38;75
75;2000;16000;64;1;38;113
75;2000;16000;128;1;38;157
90;256;1000;0;3;10;18
105;256;2000;0;3;10;20
105;1000;4000;0;3;24;28
105;2000;4000;8;3;19;33
75;2000;8000;8;3;24;47
75;3000;8000;8;3;48;54
175;256;2000;0;3;24;20
300;768;3000;0;6;24;23
300;768;3000;6;6;24;25
300;768;12000;6;6;24;52
300;768;4500;0;1;24;27
300;384;12000;6;1;24;50
300;192;768;6;6;24;18
180;768;12000;6;1;31;53
330;1000;3000;0;2;4;23
300;1000;4000;8;3;64;30
300;1000;16000;8;2;112;73
330;1000;2000;0;1;2;20
330;1000;4000;0;3;6;25
140;2000;4000;0;3;6;28
140;2000;4000;0;4;8;29
140;2000;4000;8;1;20;32
140;2000;32000;32;1;20;175
140;2000;8000;32;1;54;57
140;2000;32000;32;1;54;181
140;2000;32000;32;1;54;181
140;2000;4000;8;1;20;32
57;4000;16000;1;6;12;82
57;4000;24000;64;12;16;171
26;16000;32000;64;16;24;361
26;16000;32000;64;8;24;350
26;8000;32000;0;8;24;220
26;8000;16000;0;8;16;113
480;96;512;0;1;1;15
203;1000;2000;0;1;5;21
115;512;6000;16;1;6;35
1100;512;1500;0;1;1;18
1100;768;2000;0;1;1;20
600;768;2000;0;1;1;20
400;2000;4000;0;1;1;28
400;4000;8000;0;1;1;45
900;1000;1000;0;1;2;18
900;512;1000;0;1;2;17
900;1000;4000;4;1;2;26
900;1000;4000;8;1;2;28
900;2000;4000;0;3;6;28
225;2000;4000;8;3;6;31
225;2000;4000;8;3;6;31
180;2000;8000;8;1;6;42
185;2000;16000;16;1;6;76
180;2000;16000;16;1;6;76
225;1000;4000;2;3;6;26
25;2000;12000;8;1;4;59
25;2000;12000;16;3;5;65
17;4000;16000;8;6;12;101
17;4000;16000;32;6;12;116
1500;768;1000;0;0;0;18
1500;768;2000;0;0;0;20
800;768;2000;0;0;0;20
50;2000;4000;0;3;6;30
50;2000;8000;8;3;6;44
50;2000;8000;8;1;6;44
50;2000;16000;24;1;6;82
50;2000;16000;24;1;6;82
50;8000;16000;48;1;10;128
100;1000;8000;0;2;6;37
100;1000;8000;24;2;6;46
100;1000;8000;24;3;6;46
50;2000;16000;12;3;16;80
50;2000;16000;24;6;16;88
50;2000;16000;24;6;16;88
150;512;4000;0;8;128;33
115;2000;8000;16;1;3;46
115;2000;4000;2;1;5;29
92;2000;8000;32;1;6;53
92;2000;8000;32;1;6;53
92;2000;8000;4;1;6;41
75;4000;16000;16;1;6;86
60;4000;16000;32;1;6;95
60;2000;16000;64;5;8;107
60;4000;16000;64;5;8;117
50;4000;16000;64;5;10;119
72;4000;16000;64;8;16;120
72;2000;8000;16;6;8;48
40;8000;16000;32;8;16;126
40;8000;32000;64;8;24;266
35;8000;32000;64;8;24;270
38;16000;32000;128;16;32;426
48;4000;24000;32;8;24;151
38;8000;32000;64;8;24;267
30;16000;32000;256;16;24;603
112;1000;1000;0;1;4;19
84;1000;2000;0;1;6;21
56;1000;4000;0;1;6;26
56;2000;6000;0;1;8;35
56;2000;8000;0;1;8;41
56;4000;8000;0;1;8;47
56;4000;12000;0;1;8;62
56;4000;1
Re: [R] Read dataset in R language.
Hi all, I tried many things to read any dataset but I receive different error messages every time. One new message is: vector size specified is too large Can any one please send any part from any dataset just for testing a regression system and to know where is the problem?? Many thanks, Nancy _ Keep your friends updatedeven when youre not signed in. [[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.
[R] svm regression/classification
Hi everyone,
Can anyone please tell whether there is a difference between the code for using
svm in regression and code for using svm in classification?
This is my code for regression, should I change it to do classification?:
train <- read.table("trainingset.txt",sep=";")
test <- read.table("testset.txt",sep=";")
svmmodelfitness <- function(myformula,mydata,mytestdata)
{
mymodel <- svm(myformula,data=mydata)
mytest <- predict(mymodel, mytestdata)
error <- mytest - mytestdata[,1]
-sqrt(mean(error**2))
}
Many thanks,
Nancy
_
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[R] R2
Hi everyone,
I tried to write the code of computing R2 for a regression system but I failed.
This is the code I use for computing RMSE:
my_svm_model <- function(myformula, mydata, mytestdata)
{
mymodel <- svm(myformula, data=mydata)
mytest <- predict(mymodel, mytestdata)
error <- mytest - mytestdata[,1]
-sqrt(mean(error**2))
}
can anyone please tell me what I have to change to compute R2 instead of RMSE?
Many thanks,
Nancy
_
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Re: [R] svm regression/classification
Hi steve,
Thank you so much for your reply.Im asking about the difference between two
cases:1) when I use svm in a regression system and 2) when I use svm in a
classification system. Is the code of using svm in these two cases the
same?This is the code for a regression system:
my_svm_model <- function(myformula, mydata, mytestdata)
{
mymodel <- svm(myformula, data=mydata)
mytest <- predict(mymodel, mytestdata)
error <- mytest - mytestdata[,1]
-sqrt(mean(error**2))
}Many thanks,
Nancy
> Date: Tue, 29 Dec 2009 10:36:36 -0500
> Subject: Re: [R] svm regression/classification
> From: mailinglist.honey...@gmail.com
> To: nancyada...@hotmail.com
> CC: r-help@r-project.org
>
> Hi Nancy,
>
> Comments in line:
>
> On Sun, Dec 27, 2009 at 3:34 AM, Nancy Adam wrote:
>
> > Hi everyone,
> >
> > Can anyone please tell whether there is a difference between the code for
> > using svm in regression and code for using svm in classification?
> >
> > This is my code for regression, should I change it to do classification?:
>
> I'm not sure how to answer your question ... are you asking how you
> can explicitly tell the `svm` function to do classification vs.
> regression? Or are you asking if classification is better suited for
> your problem than regression?
>
> Are you trying to predict a label or some range of "real valued"
> numbers? Can you show us your `y` vector?
>
> -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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and provide commented, minimal, self-contained, reproducible code.
Re: [R] R2
Hi everyone,
Thanks a lot for the explanationâ¦
I tried the following code to compute R2 for a regression system but it does
not work:
my_svm_model <- function(myformula, mydata, mytestdata)
{
mymodel <- svm(myformula, data=mydata)
k<- summary(mymodel)
k$r.squared
}
Can anyone please tell me what I have to change to compute R2?
Many thanks,
Nancy
> Date: Tue, 29 Dec 2009 17:28:59 +
> From: rip...@stats.ox.ac.uk
> To: spec...@stat.berkeley.edu
> CC: nancyada...@hotmail.com; r-help@r-project.org
> Subject: Re: [R] R2
>
> On Tue, 29 Dec 2009, Phil Spector wrote:
>
> > Nancy -
> > Please notice that ** is not an R operator. The caret (^) is the
> > exponentiation operator in R.
> > - Phil
>
> Actually, no,
>
> > 2**3
> [1] 8
>
> Indeed ^ is the preferred exponentiation operator, but ** has 'always'
> been allowed. See the following note in ?"^"
>
> Note:
>
> ʽ**ʼ is translated in the parser to ʽ^ʼ, but this was undocumented
> for many years. It appears as an index entry in Becker _et al_
> (1988), pointing to the help for ʽDeprecatedʼ but is not actually
> mentioned on that page. Even though it has been deprecated in S
> for 20 years, it is still accepted.
>
> I added that note in May 2008 (and it is not intended to be a
> reference to current versions of S-PLUS, since we cannot keep checking
> that, but that Svr4 accepted it).
>
> >
> >
> >
> > On Tue, 29 Dec 2009, Nancy Adam wrote:
> >
> >>
> >> Hi everyone,
> >> I tried to write the code of computing R2 for a regression system but I
> >> failed.
> >> This is the code I use for computing RMSE:
> >>
> >> my_svm_model <- function(myformula, mydata, mytestdata)
> >> {
> >> mymodel <- svm(myformula, data=mydata)
> >> mytest <- predict(mymodel, mytestdata)
> >> error <- mytest - mytestdata[,1]
> >> -sqrt(mean(error**2))
> >>
> >> }
> >> can anyone please tell me what I have to change to compute R2 instead of
> >> RMSE?
> >>
> >> Many thanks,
> >> Nancy
> >> _
> >>
> >>
> >> [[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.
> >>
> >
> > __
> > 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.
> >
>
> --
> Brian D. Ripley, rip...@stats.ox.ac.uk
> Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
> University of Oxford, Tel: +44 1865 272861 (self)
> 1 South Parks Road, +44 1865 272866 (PA)
> Oxford OX1 3TG, UK Fax: +44 1865 272595
_
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[R] Squared correlation error
Hi everyone,
Thanks a lot for the explanationâ¦
I tried the following code to compute R2 for a regression system but it does
not work:
my_svm_model <- function(myformula, mydata, mytestdata)
{
mymodel <- svm(myformula, data=mydata)
k<- summary(mymodel)
k$r.squared
}
Can anyone please tell me what I have to change to compute R2?
Many thanks,
Nancy
>
> > Date: Tue, 29 Dec 2009 17:28:59 +
> > From: rip...@stats.ox.ac.uk
> > To: spec...@stat.berkeley.edu
> > CC: nancyada...@hotmail.com; > > Subject: Re: [R] R2
> >
> > On Tue, 29 Dec 2009, Phil Spector wrote:
> >
> > > Nancy -
> > > Please notice that ** is not an R operator. The caret (^) is the
> > > exponentiation operator in R.
> > > - Phil
> >
> > Actually, no,
> >
> > > 2**3
> > [1] 8
> >
> > Indeed ^ is the preferred exponentiation operator, but ** has 'always'
> > been allowed. See the following note in ?"^"
> >
> > Note:
> >
> > ʽ**ʼ is translated in the parser to ʽ^ʼ, but this was undocumented
> > for many years. It appears as an index entry in Becker _et al_
> > (1988), pointing to the help for ʽDeprecatedʼ but is not actually
> > mentioned on that page. Even though it has been deprecated in S
> > for 20 years, it is still accepted.
> >
> > I added that note in May 2008 (and it is not intended to be a
> > reference to current versions of S-PLUS, since we cannot keep checking
> > that, but that Svr4 accepted it).
> >
> > >
> > >
> > >
> > > On Tue, 29 Dec 2009, Nancy Adam wrote:
> > >
> > >>
> > >> Hi everyone,
> > >> I tried to write the code of computing R2 for a regression system but I
> > >> failed.
> > >> This is the code I use for computing RMSE:
> > >>
> > >> my_svm_model <- function(myformula, mydata, mytestdata)
> > >> {
> > >> mymodel <- svm(myformula, data=mydata)
> > >> mytest <- predict(mymodel, mytestdata)
> > >> error <- mytest - mytestdata[,1]
> > >> -sqrt(mean(error**2))
> > >>
> > >> }
> > >> can anyone please tell me what I have to change to compute R2 instead of
> > >> RMSE?
> > >>
> > >> Many thanks,
> > >> Nancy
> > >> _
> > >>
> > >>
> > >> [[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.
> > >>
> > >
> > > __
> > > 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.
> > >
> >
> > --
> > Brian D. Ripley, rip...@stats.ox.ac.uk
> > Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
> > University of Oxford, Tel: +44 1865 272861 (self)
> > 1 South Parks Road, +44 1865 272866 (PA)
> > Oxford OX1 3TG, UK Fax: +44 1865 272595
>
> _
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[R] Questions bout SVM
Hi everyone, Can someone please help me in these questions?: 1)if I use crossvalidation with svm, do I have to use this equation to calculate RMSE?: mymodel <- svm(myformula,data=mydata,cross=10) sqrt(mean(mymodel$MSE)) But if I dont use crossvalidation, I have to use the following to calculate RMSE: mymodel <- svm(myformula,data=mydata) mytest <- predict(mymodel, mytestdata) error <- mytest - mytestdata[,1] sqrt(mean(error**2)) 2)if I dont set the parameters of SVM, like in the above, how the program knows them? Or it is a must to determine them when I invoke svm? 3)can you please tell me why we use this equation: mymodel <- svm(myformula,data=mydata)instead of mymodel <- svm(myformula, mydata) and why use this: error <- mytest - mytestdata[,1] instead of error <- mytest mytestdata any help will be really appricaited. Many thanks, Nancy _ Keep your friends updatedeven when youre not signed in. [[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.
Re: [R] Questions bout SVM
Hi Steve, Thanks a lot for your reply.1)Im still confused which equation (1-
sqrt(mean(mymodel$MSE)) OR 2- mean(sqrt(mymodel$MSE)) )is equivalent to
sqrt(mean(error**2))?I just want to compute the typical RMSE that is usually
used for measuring the performance of regression systems. 2)Im talking about
another addition related to the svm parameters in the call to SVM.
i.e.my_svm_model<- function(myformula, mydata, mytestdata, parameterlist)
{mymodel <- svm(myformula, data=mydata, cross=10, cost=parameterlist[[1]],
epsilon=parameterlist[[2]],gamma=parameterlist[[3]])If I dont set these
parameters of svm (like: my_svm_model<- function(myformula, mydata,
mytestdata), how does svm know them? 3) in 2) Is it correct to use mydata
instead of data=mydata? Or I can do that only if it is the last argument in
the function call? 4)Does mytestdata[,1] means that the model will use only the
last column on the testing set?Many thanks,Nancy
> Date: Sat, 2 Jan 2010 17:32:44 -0500
> Subject: Re: [R] Questions bout SVM
> From: mailinglist.honey...@gmail.com
> To: nancyada...@hotmail.com
> CC: r-help@r-project.org
>
> Hi,
>
> On Fri, Jan 1, 2010 at 1:03 PM, Nancy Adam wrote:
> >
> > Hi everyone,
> > Can someone please help me in these questions?:
> >
> > 1)if I use crossvalidation with svm, do I have to use this equation to
> > calculate RMSE?:
> > mymodel <- svm(myformula,data=mydata,cross=10)
> > sqrt(mean(mymodel$MSE))
>
> No, I don't think so. W/o looking at the C code, I'm guessing that MSE
> is a vector of length 10 that represents the mean squared error from
> each fold ... but what are you trying to do? Trying to get the average
> of the RMSE over all folds? Wouldn't that then be:
> mean(sqrt(mymodel$MSE))?
>
> > But if I dont use crossvalidation, I have to use the following to
> > calculate RMSE:
> > mymodel <- svm(myformula,data=mydata)
> > mytest <- predict(mymodel, mytestdata)
> > error <- mytest - mytestdata[,1]
> > sqrt(mean(error**2))
>
> OK
>
> > 2)if I dont set the parameters of SVM, like in the above, how the program
> > knows them? Or it is a must to determine them when I invoke svm?
>
> What parameters are you talking about? Your two `svm` function calls
> look the same with the exception of not including a value for `cross`
> in your 2nd.
>
> What parameters of the SVM do you think are different?
>
> > 3)can you please tell me why we use this equation:
> > mymodel <- svm(myformula,data=mydata)instead of mymodel <- svm(myformula,
> > mydata)
>
> Since the "data" argument is the 2nd argument in the function
> definition of svm.formula, those two invocations are actually the
> same.
>
> > and why use this:
> > error <- mytest - mytestdata[,1] instead of error <- mytest mytestdata
>
> It depends on what type of variable 'mytestdata' is, and its shape,
> eg. those two calls might be doing the same thing if mytestdata is
> just a 1d matrix.
>
> -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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[R] e1071 package
hi all, Im trying to install e1071 package to a new computer but I failed. Can any one please tell me how I download it without installing through R? can anyone please send it as an attachment please? Many thanks, Nancy _ Hotmail: Trusted email with powerful SPAM protection. [[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.
