[BioC] bluefuse export and limma read.maimages

Gordon Smyth smyth at wehi.edu.au
Mon Jul 18 15:02:19 CEST 2005

Dear Greg,

Support for BlueFuse export files how now been added to limma 2.0.3, 
available from http://bioinf.wehi.edu.au/limma. Please try it out.

There are some minor changes from your code:
- BlueFuse doesn't provide background intensities, so only foreground 
intensities are read. The background columns are not set at all. This will 
work correctly with all limma functions which operate on RGList objects.
- The gene annotation columns are left the same as in the export file, 
i.e., in capitals.
- FLAG column is not read into the annotation data frame, because it is 

The function readBlueFuseHeader() now returns an error whenever the second 
line is not blank.


 > Date: Wed, 06 Jul 2005 15:22:11 +0100
 > From: Gregory Lefebvre <gl2 at sanger.ac.uk>
 > Subject: [BioC] bluefuse export and limma read.maimages
 > To: bioconductor at stat.math.ethz.ch
 > Hi all,
 > here are some hacks added to read.maimages() function in LIMMA package,
 > in order to read BlueFuse export files.
 > It works fine for me.
 > Let me know.
 > Greg
(code deleted)

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