get.annotation: Get annotation data for a gene list
In simpleaffy: Very simple high level analysis of Affymetrix data

Description Usage Arguments Value Author(s) References Examples

Takes a vector of probeset names and a CDF name. Produces a table of annotations, containing gene name, description, sequence accession number and unigene accession number for each probeset. In addition, write.annotation is a utility function that outputs the annotation data in a form suitable for loading into excel and results.summary takes the outut of pairwise.comparison or pairwise.filter and spits out a table with the means of the replicates the fold-change between them (log2) and t-test p-values. This is followed by a table of annotation (produced by get.annotation).

1
2
3

get.annotation(x, cdfname,verbose=FALSE)
write.annotation(summary,file="results/annotation.table.xls")
results.summary(results,cdfname)

`x`	a vector of probe names
`cdfname`	the name of the chip (as produced by cdfName(AffyBatch)
`verbose`	print out information if problems are found looking things up in the annotation data
`summary`	a table of data to write in a format appropriate to read into Excel
`file`	a table delimited file
`results`	a PairComp object, as produced by pairwise.comparison and pairwise.filter

A table containing annotation data

Crispin J Miller

http://bioinformatics.picr.man.ac.uk/

 ## Not run: 
   pw       <- pairwise.comparison(eset.rma,"group",c("A","P"))
   pw.filtered <- pairwise.filter(pw)
   summary     <- results.summary(pw.filtered,"hgu133a")
   write.annotation(file="spreadsheet.xls",summary)
  
## End(Not run)