jps at sanger.ac.uk
Tue Feb 3 12:04:19 MET 2004
I'm guessing the answer to my question is YES but are the Rb and Gb parts of read.maimages still compulsory ?
Or can I some how ignore them ?
I'm using some software (BlueFuse) that isn't supported by limma so I need to specify the column headers but the software
doesn't give background values just values for Cy3 & Cy5 as it's approach is different to other spot finding programs.
So at the moment I'm having to make new columns for the background
and give them values of 0 for each gene.
I've searched the mail achives and could only find this message from June 2003
I was asking just in case anything has changed since then OR is there an option for making Rb & Gb NULL
or FALSE or something similar
Date: Thu, 19 Jun 2003 10:09:13 +1000
From: Gordon Smyth <smyth at wehi.edu.au>
Subject: Re: [BioC] read.maimages
The limma help documentation for 'read.maimages' says:
columns: list with fields `Rf', `Gf', `Rb' and `Gb' giving the column
names to be used for red and green foreground and background.
So you need something like
The names in double quotes are the column names in your file. The rest of
the syntax is compulsory!
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