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Heike Pospisil
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310
@heike-pospisil-1097
Last seen 10.2 years ago
Hello,
it's the first time I am dealing with two-color microarrays. That is
why
I have some (probably stupid) questions...
I am trying to analyze GenePix files using the marrayInput package and
I
ran into two difficulties:
1) I have 24 GenePix-arrays that are defined by three different
*.gal-files. Can I merge the expressions for these three types of
arrays
for the upcoming normalization step?
2) Does someone know the error message "Error in if (skip > 0)
readLines(file, skip) : missing value where TRUE/FALSE needed" and has
a
hint for avoiding it?
> galinfo<-read.Galfile("3kArray5.gal")
> myTargets <- read.marrayInfo(file.path(data.dir, "target.txt"))
target.txt:
Name Cy3 Cy5
a.gpr 10D 14D
ar.gpr 14D 10D
>
read.GenePix(c("a.gpr","ar.gpr"),targets=myTargets,layout=galinfo$layo
ut,gnames=galinfo$gnames,)
Reading ... a.gpr
Error in if (skip > 0) readLines(file, skip) :
missing value where TRUE/FALSE needed
Unfortunately, I have no idea what could be the reason for this error
message. I would be very glad about any suggestion.
Thanks in advance and best wishes,
Heike
PS: I am using R2.3.1 and marray version 1.12.0.
--
Dr. Heike Pospisil | pospisil at zbh.uni-hamburg.de
University of Hamburg | Center for Bioinformatics
Bundesstrasse 43 | 20146 Hamburg, Germany
phone:+49-40-42838-7303 | fax: +49-40-42838-7312