[BioC] Problem with read.marrayRaw

[Jean Yee Hwa Yang]

Hi Joyce,

The function assumes you have a tab delimited file.  If not, you need to
include the argument sep=",".

If it still didn't work, please send me the file "cDNA196.csv" and I will
take a look.

Cheers

Jean

~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 Jean Yee Hwa Yang			 jean at biostat.ucsf.edu
 Division of Biostatistics,		   Tel: (415) 476-3368
 University of California,		   Fax: (415) 476-6014
 500 Parnassus Avenue, MU 420-W,  San Francisco, CA 94143-0560
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

On Thu, 22 Jan 2004, Joyce Gu wrote:

> Hi Jean,
> I did declare Res and Green channels, I am using the following command
> 
> > data196.raw<-read.marrayRaw("cDNA196.csv",sep=",",path="~/...",
> + name.Gf="Ch1 Median",name.Gb="Ch1 B Median",name.Rf="Ch2 
> Median",name.Rb="Ch2 B Median")
> 
> I still got the follwoing error message
> [1] "Reading C:/MicroArray/cDNARawData/FormattedData/cDNA196.csv"
> Error in "colnames<-"(`*tmp*`, value = fnames) :
>         length of dimnames[2] not equal to array extent
> In addition: Warning messages: 
> 1: number of items read is not a multiple of the number of columns 
> 2: NAs introduced by coercion 
> 3: NAs introduced by coercion 
> 4: NAs introduced by coercion
> 
> Thanks
> >===== Original Message From Jean Yee Hwa Yang <jean at biostat.ucsf.edu> =====
> >Hi Joyce,
> >
> >What is the exact command you use?  Usually with read.marrayRaw, you will
> >need to specify the column names for the Red and Green channels.  In
> >addition, what kind of image analysis files are you trying to read your
> >data from.
> >
> >Cheers
> >
> >Jean
> >
> >~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> > Jean Yee Hwa Yang			 jean at biostat.ucsf.edu
> > Division of Biostatistics,		   Tel: (415) 476-3368
> > University of California,		   Fax: (415) 476-6014
> > 500 Parnassus Avenue, MU 420-W,  San Francisco, CA 94143-0560
> >~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> >
> >On Thu, 22 Jan 2004, Joyce Gu wrote:
> >
> >> Hi,
> >> I am using marray packages to analyze my cDNA data,
> >> when I load my data with read.marrayRaw() function,
> >> I got the following error messag,
> >> 1] "Reading C:/MicroArray/cDNARawData/FormattedData/cDNA196.csv"
> >> Error in "colnames<-"(`*tmp*`, value = fnames) :
> >>         length of dimnames[2] not equal to array extent
> >>
> >> Does anyone can give a hint?
> >>
> >> Thank you
> >>
> >> _______________________________________________
> >> Bioconductor mailing list
> >> Bioconductor at stat.math.ethz.ch
> >> https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
> >>
> 
>