Re: [R] lars - lasso problem

From: gauri j <gauri.jape7_at_gmail.com>
Date: Fri, 08 Apr 2011 13:05:18 -0500

HI,
Thank you, I will try this, and let you know about the results.

Thanks once again.

Gauri

2011/4/8 Steve Lianoglou <mailinglist.honeypot_at_gmail.com>

> Hi,
>
> First: Please make sure you CC R-help when responding to messages on
> the list so that more people can help you, and more people can benefit
> from help that is provided. You can do so easily by replying with
> "reply-all."
>
> Now:
> Look at the help for the lars function:
>
> R> ?lars
>
> You'll see that `x` should be a matrix. I guess it doesn't say as
> much, but `y` should be a (numeric) response.
>
> Both of x and y in your case are data.frames. Convert them to the
> appropriate objects and try again, eg:
>
> R> x <- as.matrix(x)
> R> y <- as.numeric(y[,1])
>
> Now make sure that these objects look right by (among other things)
> examining the output of:
>
> R> head(x)
> R> head(y)
>
> Then try lars again.
>
> Also, I'd suggest using the glmnet package instead of lars. It's
> written by the same people and you'll get both the lasso and
> elasticnet under one roof.
>
> -steve
>
> On Fri, Apr 8, 2011 at 1:54 PM, gauri j <gauri.jape7_at_gmail.com> wrote:
> > hi,
> > the output of commands given by you, is as follows,
> >
> >
> > command:
> > R> is(x)
> > R> apply(x, 2, function(x) is(x)[1])
> > R> is(y)
> >
> >
> >
> > output:
> > is(x)
> > [1] "data.frame" "list" "oldClass" "vector"
> >> apply(x, 2, function(x) is(x)[1])
> > V1 V2 V3 V4 V5 V6 V7
> > V8
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V9 V10 V11 V12 V13 V14 V15
> > V16
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V17 V18 V19 V20 V21 V22 V23
> > V24
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V25 V26 V27 V28 V29 V30 V31
> > V32
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V33 V34 V35 V36 V37 V38 V39
> > V40
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V41 V42 V43 V44 V45 V46 V47
> > V48
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V49 V50 V51 V52 V53 V54 V55
> > V56
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V57 V58 V59 V60 V61 V62 V63
> > V64
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V65 V66 V67 V68 V69 V70 V71
> > V72
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V73 V74 V75 V76 V77 V78 V79
> > V80
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V81 V82 V83 V84 V85 V86 V87
> > V88
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V89 V90 V91 V92 V93 V94 V95
> > V96
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V97 V98 V99 V100 V101 V102 V103
> > V104
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V105 V106 V107 V108 V109 V110 V111
> > V112
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V113 V114 V115 V116 V117 V118 V119
> > V120
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V121 V122 V123 V124 V125 V126 V127
> > V128
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V129 V130 V131 V132 V133 V134 V135
> > V136
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V137 V138 V139 V140 V141 V142 V143
> > V144
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V145 V146 V147 V148 V149 V150 V151
> > V152
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V153 V154 V155 V156 V157 V158 V159
> > V160
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V161 V162 V163 V164 V165 V166 V167
> > V168
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V169 V170 V171 V172 V173 V174 V175
> > V176
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V177 V178 V179 V180 V181 V182 V183
> > V184
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V185 V186 V187 V188 V189 V190 V191
> > V192
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V193 V194 V195 V196 V197 V198 V199
> > V200
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V201 V202 V203 V204 V205 V206 V207
> > V208
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V209 V210 V211 V212 V213 V214 V215
> > V216
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V217 V218 V219 V220 V221 V222 V223
> > V224
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V225 V226 V227 V228 V229 V230 V231
> > V232
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V233 V234 V235 V236 V237 V238 V239
> > V240
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V241 V242 V243 V244 V245 V246 V247
> > V248
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V249 V250 V251 V252 V253 V254 V255
> > V256
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V257 V258 V259 V260 V261 V262 V263
> > V264
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V265 V266 V267 V268 V269 V270 V271
> > V272
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> > V273 V274 V275 V276 V277 V278 V279
> > V280
> > "integer" "integer" "integer" "integer" "integer" "integer" "integer"
> > "integer"
> >> is(y)
> > [1] "data.frame" "list" "oldClass" "vector"
> >
> > On Fri, Apr 8, 2011 at 11:11 AM, Steve Lianoglou
> > <mailinglist.honeypot_at_gmail.com> wrote:
> >>
> >> Hi,
> >>
> >> On Fri, Apr 8, 2011 at 10:33 AM, gauri j <gauri.jape7_at_gmail.com> wrote:
> >> > hi,
> >> > I have problem in following code, error is occurred. I have attached
> my
> >> > data
> >> > herewith. and my code is as following,
> >> >> library(lars)
> >> > Loaded lars 0.9-8
> >> > Warning message:
> >> > package 'lars' was built under R version 2.12.2
> >> >> x<- read.table("D:/spring '11/james reggression/NewFeature.txt")
> >> >> y<-read.table("D:/spring '11/lars/RFU.txt")
> >> >> out<- lars(x,y, type = "lasso")
> >> > Error in one %*% x : requires numeric/complex matrix/vector arguments
> >>
> >> What is the output for the following commands?
> >>
> >> R> is(x)
> >> R> apply(x, 2, function(x) is(x)[1])
> >> R> is(y)
> >>
> >>
> >> --
> >> 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
> >
> >
>
>
>
> --
> 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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