Re: flags?
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Entering edit mode
@gordon-smyth
Last seen 6 hours ago
WEHI, Melbourne, Australia
At 01:01 PM 31/12/2003, Simon Melov wrote: >Gordon, >when you assign zero weights to spots with flags, is this via the wtfun? >(i.e. as in the guide ) > > RG <- read.maimages(files,source="genepix",wt.fun=wtflags(0.1)) > >or is there another way to specifically id certain types of flags in limma >(eg -50 vs -100)? >Thanks You can specify any weight function that you like, but you have to define it yourself. For example, if you wish to give zero weight to all flags less than -50 you could use myfun <- function(x) as.numeric(x$Flags > -50.5) RG <- read.maimages(files, source="genepix", wt.fun=myfun) Gordon >S.
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