[BioC] annotation

[Benilton Carvalho]

you should create the appropriate phenoData object and pass it to
read.xysfiles (if you're using 'oligo').

eg.:

library(oligo)
xys <- list.xysfiles()
ddf <- data.frame(group = rep(c("experimental", "control", "mutated"),
each=4), row.names=xys)
vmd <- data.frame(labelDescription = "Treatment applied to samples")
pdt <- new("AnnotatedDataFrame", data=ddf, varMetadata=vmd)
rawData <- read.xysfiles(xys, phenoData=pdt)
rawData$group

b

2010/8/13 Marcelo Brandão <brandao.marcelo at gmail.com>:
> Hello there
> I am using Bioc to analyze a Nimblegen Microarray. Everything seems to
> be smoothly working. I would like to ask for some help, I have 12 xys
> files, and wander if there is a way to "annotate" each one of them as
> experimental, control or mutated. So, when I will perform any
> comparison there is any way to design the experiment as designEsp <-
> cbind(Grp1=1,Grp2vs1=c(control,mutated)) ?
>
> Complicated? Well, to simplify:
> there is a way to simply say to Bioc: "now I will analyze control
> versus experimental."
>
> Many thanks in advance.
>
> Marcelo
>
> --
> Marcelo Mendes Brandão
> Postdoc fellow
> Laboratório de Biologia Molecular de Plantas - ESALQ/USP
> Website: http://bioinfo.esalq.usp.br
> AtPIN: http://bioinfo.esalq.usp.br/atpin
> SKYPE: mmbrand
> Tel: (+55) 19 3429 4442
>
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