[Rd] More Rgraphviz help needed (Was: package installation order)

From: Dirk Eddelbuettel <edd_at_debian.org>
Date: Mon, 19 Nov 2007 09:54:22 -0600

On 14 November 2007 at 20:38, Seth Falcon wrote:
| Dirk Eddelbuettel <edd@debian.org> writes:
| > When trying to package the by-now-gargantuan Rmetrics for Debian (which is
| > still ongoing), I looked around for some Depends builders. Turns out that
| > BioC has this. E.g. the following worked for:
| >
| > ## > install.packages("Biobase", repo="http://www.bioconductor.org")
| > ## > repos <- Biobase:::biocReposList()
| > ## > install.packages("pkgDepTools", repos=repos["bioc"])
| > ## > library(pkgDepTools)
| > ## Loading required package: graph
| > ## Loading required package: RBGL
| > ## > CRANdeps <- makeDepGraph(repos["cran"], type="source")
| > ## > getInstallOrder("Rmetrics", CRANdeps, needed.only=FALSE)
| >
| > worked for me. I meant to add some code for Graphviz visualization (or look
| > for it, Seth et al probably already wrote it) but what you get from
| > getInstallOrder() should suit your needs here.
| makeDepGraph returns a graphNEL instance and Rgraphviz knows how to
| plot those. The entire graph will likely not produce a particularly
| compelling visualization. But you can subset the graph according to a
| particular package's dependencies, etc.

Yes indeed!! That was pretty straightforward just by following some code inside getInstallOrder. And using "twopi" is good enough for the 40-some packages in the graph.

But now I need the icing on the cake: Given such a dependency graph, how can I color further subgraphs according to some criterion: I'd love to select a sub-list (of, say, new packages, or of packages that satisfy some other criterion) and have their node plotted in a different color. The help pages clearly indicate that this should be possible, but they are also a little terse on how one would do this... Any pointers anywhere?


Three out of two people have difficulties with fractions.

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