[BioC] Colourful way of visualising differential analysis results

[Daniel Brewer]

Dear all,

I am doing some work on a two-colour microarray (Agilent) experiment and
I have used limma to do some differential analysis.  The person I am
doing this work was keen to have a heatmap of the differentially
expressed genes expression levels.  Unfortunately, the design is rather
complex and random (closer to a loop design than a common reference) so
its not possible to produce a traditional heatmap.  I was wondering if
anyone had any suggestions of a colourful way to show that the
expression of the two groups are different?

In particular I was thinking that there must be estimates of the
expression and error in each group by the linear model, but couldn't
work out how to find these.

Thanks

Dan

-- 
**************************************************************
Daniel Brewer, Ph.D.

Institute of Cancer Research
Molecular Carcinogenesis
Email: daniel.brewer at icr.ac.uk
**************************************************************

The Institute of Cancer Research: Royal Cancer Hospital, a charitable Company Limited by Guarantee, Registered in England under Company No. 534147 with its Registered Office at 123 Old Brompton Road, London SW7 3RP.

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