[BioC] Coordinate Question for Rgraphviz

[Martin Morgan]

On 07/02/2012 11:02 PM, Jiayi Hou [guest] wrote:
>
> Hi,
>
> I am trying to generate bubble plot using Rgraphviz package to show fold changes of genes between two samples. In order to make things clear, I need show values of fold changes for each of the gene I am plotting. Therefore, adding x-axis and y-axis would be truly helpful to visualize. Does anyone knows if it is possible to do so and if yes, then how to do it?

Hi -- I'm not sure what 'bubble plot' is but perhaps Rgraphviz is not 
appropriate; maybe you want to use plot() and points(), the latter with 
different cex arguments?

 > plot(0, 0, xlim=c(0, 1), ylim=c(0, 1), type="n")
 > points(runif(30), runif(30), cex=runif(30) * 30)

Martin

>
> Thanks,
>
> Jiayi
>
>   -- output of sessionInfo():
>
> R version 2.12.2 (2011-02-25)
> Platform: i386-pc-mingw32/i386 (32-bit)
>
> locale:
> [1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252
> [3] LC_MONETARY=English_United States.1252 LC_NUMERIC=C
> [5] LC_TIME=English_United States.1252
>
> attached base packages:
> [1] grid      stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] Rgraphviz_1.28.0 graph_1.28.0
>
> loaded via a namespace (and not attached):
> [1] tools_2.12.2
>
>
> --
> Sent via the guest posting facility at bioconductor.org.
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at r-project.org
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor


-- 
Computational Biology / Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N.
PO Box 19024 Seattle, WA 98109

Location: Arnold Building M1 B861
Phone: (206) 667-2793