[BioC] other.columns with ImaGene data (Limma read.maimages)

michael watson (IAH-C) michael.watson at bbsrc.ac.uk
Tue Jun 21 18:05:55 CEST 2005

Where did you try looking?

They should be in somewhere like



-----Original Message-----
From:	bioconductor-bounces at stat.math.ethz.ch on behalf of Richard Pearson
Sent:	Tue 21/06/2005 4:51 PM
To:	Richard Pearson
Cc:	bioconductor at stat.math.ethz.ch
Subject:	[BioC] other.columns with ImaGene data (Limma read.maimages)
I can't seem to get the other.columns to work in read.maimages. I have
limma version 2.0.0. I have tried the following command:

RG <- read.maimages(files, source="imagene"
, other.columns=list(Col="Column",Row="Row",MetaCol="Meta
Column",MetaRow="Meta Row",Flag="Flag")
, wt.fun=mywtfun)

This loads the intensity data fine but I have no "other" columns. I assume
the problem is that this will call the read.imagene function which doesn't
have an other.columns option - is this correct? Can anyone suggest a simple
work around (my R is fairly limited at present!)?



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