[BioC] limma reading wrong column for GPR files

[Marcus Davy]

You are going to have to supply more information, e.g. version of limma, call to read.maimages, etc.

I downloaded the Genepix 3.0.6 example on the axon website using read.maimages (http://www.axon.com/gn_GPR_Format_History.html) and had no problems correctly populating an RGList with the default columns headers;
   
genepix = list(Rf = "F635 Mean", Gf = "F532 Mean", 
                Rb = "B635 Median", Gb = "B532 Median"),

This was with limma version 1.9.6.

Marcus

>>> Guoneng Zhong <guoneng.zhong at yale.edu> 26/05/2005 9:25:16 p.m. >>>
Hi,

 I have files generated by Genepix 3.0 and when I use maimages 
(source="genepix") and checked the RG value (RG being the object created 
by read.maimages), the red channel foreground reading and the 
greenchannel foreground reading are swapped (incorrectly), but the 
background channel are not swapped.  What gives?  Does the latest 
version of limma know how to read Genepix v. 3 (as opposed to version 
5/6, which have different column orderings).

Thanks,
G

_______________________________________________
Bioconductor mailing list
Bioconductor at stat.math.ethz.ch 
https://stat.ethz.ch/mailman/listinfo/bioconductor

______________________________________________________

The contents of this e-mail are privileged and/or confidenti...{{dropped}}