[BioC] plot.gene() with smaller key color steps?

Paul Hammer Paul.Hammer at p-t-p.de
Mon Mar 31 12:33:10 CEST 2008

hi members,

i try to plot genes with the function plot.gene(). Actually it works 
fine but i would like to change the key color value steps. now i have a 
range from 0 till 12 with 1 per step (12 different colors). Because the 
expression values are in log scale it would be better to separate the 
color steps to 0.1 (120 colors).

here my R code:
plot.gene("gene", affy.rma, gps=list(22:24), type="mean-int", 
col.range=c(0,12), use.symbol=TRUE, use.mt=FALSE, probes.min = 4, main=" 
Intensity", border.col="black", text.col="black", text.bg="white", 
exon.borders=FALSE, show.legend=TRUE)

any suggestions?


 > sessionInfo()
R version 2.6.2 (2008-02-08)


attached base packages:
[1] splines   tools     stats     graphics  grDevices utils     datasets
[8] methods   base

other attached packages:
 [1] gplots_2.3.2         gdata_2.4.0          gtools_2.4.0
 [4] exonmap_1.4.3        plier_1.8.0          RMySQL_0.6-0
 [7] DBI_0.2-4            RColorBrewer_1.0-2   simpleaffy_2.14.05
[10] gcrma_2.10.0         matchprobes_1.10.0   genefilter_1.16.0
[13] survival_2.34        affy_1.16.0          preprocessCore_1.0.0
[16] affyio_1.6.1         Biobase_1.16.3

loaded via a namespace (and not attached):
[1] annotate_1.16.1     AnnotationDbi_1.0.6 rcompgen_0.1-17
[4] RSQLite_0.6-8

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