[BioC] Layout in limma
smyth at wehi.edu.au
Wed Feb 11 23:33:30 MET 2004
At 09:09 PM 11/02/2004, Binita Dutta wrote:
>I have gene description of microarray in text file (not the GAL file as
>given for the swirl example in limma package) and the data set is also in
>the text file. As i undertsnad there are no facilities for importing
>marrayRaw objects into limma.
There are now. See the 'convert' package at
http://bioinf.wehi.edu.au/limma/convert.html. This package will be added to
Bioconductor soon, but you can download it from there in the meantime.
> I want to analyse the whole data in limma for the color flip
> experiments. I can import the data for analysis in limma package but have
> not been able to feed in the layout of my array. Please let me know how
> to do this. I have 2 "grid columns" and 12 "grid rows". Within each grid
> there are 45 "spot columns" and 21 "spot rows".
I agree that this is not as well documented now as it was in the past,
since I simplified the commands in the User's Guide. You need
> Is there anythng similar to "widget.marrayLayout()" in limma package?
Not exactly, but there is as entire GUI interface to limma available at
>Thanks in advance.
>Dr. Binita Dutta
>Onderwijs en Navorsing
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