[BioC] heatplot() 1. red-*black*-green palette, 2.suppress drawing of the row dendrogram (but NOT row reordering)

[James W. MacDonald]

  Hi Karl,

You need to show us the function call you used rather than saying what 
you did. The errors indicate that  you used the 'col' argument twice in 
the first attempt and the 'dendrogram' argument twice in the second 
attempt. But without seeing exactly what  you did, nobody can say for sure.

Best,

Jim



On 8/6/10 11:55 AM, Karl Brand wrote:
> Esteemed BioC Users,
>
> Could some one help me obtain the garden variety microarray heatmap 
> "red-*black*-green" palette in heatplot()? Using-
>
> lowcol="green", highcol="red"
>
> -has no black transition between red and green.
>
> Since its based on heatmap.2, i thought i could achieve this by 
> passing the following argument to heatplot():
>
> cols.default=FASLE #to suppress default color palette
> col = c(redgreen(256))
>
> but get the error-
>
> > Error in heatmap.2(data, Colv = Colv, Rowv = Rowv, col = plotcols, 
> scale = scale,  :
> >  formal argument "col" matched by multiple actual arguments
>
> I'd also like to suppress drawing of the row dendrogram (but NOT the 
> reordering or rows), but again the heatmap.2 argument to do this-
>
> dendrogram = "column" #draw only column dendrograms
>
> returned-
>
> > Error in heatmap.2(data, Colv = Colv, Rowv = Rowv, col = plotcols, 
> scale = scale,  :
> >  formal argument "dendrogram" matched by multiple actual arguments
>
> With thanks in advance, cheers,
>
> Karl
>

-- 
James W. MacDonald, M.S.
Biostatistician
Douglas Lab
University of Michigan
Department of Human Genetics
5912 Buhl
1241 E. Catherine St.
Ann Arbor MI 48109-5618
734-615-7826

**********************************************************
Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues