[R] Could not find createData function

[Martin Morgan]

Hi --

On 07/06/2010 03:21 AM, shabnam k wrote:
> Hi,
> 
>   I am using "*Maanova* package" to do anova. I have created *datafile* with
> probeID as the first column, which is a tab limited text file and also
> created *designfile*. I have created *readma object* which is named as abf1.
>>From that readma object, i have to create data object by using
> *createData*function and also i hav to create model object by using
> *makemodel* function, then i have to fit the model of anova.But, the problem
> is it could not find createData function. Am pasting the commands which i
> used below.Please give me the solution to my problem, as am unabl;e to
> proceed further.

maanova is a Bioconductor package so please ask on the Bioconductor
mailing list

  http://bioconductor.org/docs/mailList.html

The vignette for this package

  browseVignettes('maanova')

does not mention createData; what instructions are you following?

Martin

> 
> 
> R version 2.11.1 (2010-05-31)
> Copyright (C) 2010 The R Foundation for Statistical Computing
> ISBN 3-900051-07-0
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>> library(affy)
> Loading required package: Biobase
> 
> Welcome to Bioconductor
> 
> 
>   'openVignette()'. To cite Bioconductor, see
>   'citation("Biobase")' and for packages 'citation(pkgname)'.
> 
>> library(maanova)
> 
> Attaching package: 'maanova'
> 
> The following object(s) are masked from 'package:base':
> 
>     norm
> 
>> abf1.raw <- read.madata("gcrmadata.expr.
> dat", designfile="design.dat",
> +         probeID=1, pmt=2, spotflag=F)
> Reading one color array.
>  Otherwise change arrayType='twoColor' then read the data again
> Warning messages:
> 1: In read.madata("gcrmadata.expr.dat", designfile = "design.dat",  :
>   Assume that the first column is probeid. If you have probeid specify it,
> otherwise set 'probeid=0' then read the data again
> 
> 2: In read.madata("gcrmadata.expr.dat", designfile = "design.dat",  :
>   Assume that intensity value is saved from the second column. Otherwise
> provide 'intensity' (first column storing intensity) information, and read
> the data again
> 
>> abf1.raw
> 
>                 Summary for this experiment
> 
> Number of dyes:  1
> Number of arrays:        4
> Number of genes:         8799
> Number of replicates:    1
> Transformation method:   None
> Replicate collapsed:     FALSE
>> data(abf1)
>> abf1 <- *createData*(abf1, 1, log.trans=F)
> *Error: *could not find function* "createData"
> 
> 
> 
> 
> *
> 
> 	[[alternative HTML version deleted]]
> 
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-- 
Martin Morgan
Computational Biology / Fred Hutchinson Cancer Research Center
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