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carol white <wht_crl at="" yahoo.com=""> writes: > hi, What is the use of having samples name in the first column and > variable names in the first row of a phenoData file if sampleNames is > not instanciated to the sample names nor varLabels to the value of > variable names? having 4 variables and 3 samples for ex, there will be > 5 variables and 4 samples in the phenodata object. How can I modify to > the object to an object of 4 var and 3 samples with samples and > variable names? I'm having a hard time parsing your email message. I wonder if you could give some concrete code examples of what you are trying to do... + seth -- Seth Falcon | Computational Biology | Fred Hutchinson Cancer Research Center http://bioconductor.org

>From the man pages, read.phenoData uses read.table. read.table has arguments header=FALSE, and row.names to influence row names. Provide approrpiate arguments to read.phenoData, and they ware passed to read.table. varLabels _describes_ (i.e., is metadata about) the variable (column) labels. Looking forward two steps. In the released version of Biobase read.AnnotatedDataFrame is a replacement for read.phenoData, appropriate for creating an ExpressionSet. In the devel version of Biobase, read.AnnotatedDataFrame has been changed to include the metadata about columns in the file to be parsed. Martin Seth Falcon <sfalcon at="" fhcrc.org=""> writes: > carol white <wht_crl at="" yahoo.com=""> writes: > >> hi, What is the use of having samples name in the first column and >> variable names in the first row of a phenoData file if sampleNames is >> not instanciated to the sample names nor varLabels to the value of >> variable names? having 4 variables and 3 samples for ex, there will be >> 5 variables and 4 samples in the phenodata object. How can I modify to >> the object to an object of 4 var and 3 samples with samples and >> variable names? > > I'm having a hard time parsing your email message. I wonder if you > could give some concrete code examples of what you are trying to do... > > + seth > > -- > Seth Falcon | Computational Biology | Fred Hutchinson Cancer Research Center > http://bioconductor.org > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor -- Martin Morgan Bioconductor / Computational Biology http://bioconductor.org