[BioC] Kegg pathway --> gene network
Elliot Kleiman
kleiman at rohan.sdsu.edu
Sun Dec 28 22:44:45 CET 2008
Hi Fraser,
Although KEGGgraph has not yet been
formally released, you may still manually
install it.
First, download it to your local machine
* [ http://www.bioconductor.org/packages/2.4/bioc/html/KEGGgraph.html ]
For example, I am [still] running R version 2.7.2 and I have installed
KEGGgraph, by doing, ...
# must be su (or root) or have sudo permissions
% R CMD INSTALL KEGGgraph_0.8.7.tar.gz
# print-out sessionInfo()
> sessionInfo()
R version 2.7.2 (2008-08-25)
i686-pc-linux-gnu
locale:
LC_CTYPE=en_US;LC_NUMERIC=C;LC_TIME=en_US;LC_COLLATE=C;LC_MONETARY=C;LC_MESSAGES=en_US;LC_PAPER=en_US;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US;LC_IDENTIFICATION=C
attached base packages:
[1] grid stats graphics grDevices utils datasets methods
[8] base
other attached packages:
[1] RBGL_1.18.0 biomaRt_1.14.1 RCurl_0.92-0 Rgraphviz_1.18.1
[5] KEGGgraph_0.8.7 graph_1.20.0 XML_1.98-1
loaded via a namespace (and not attached):
[1] cluster_1.11.11 tools_2.7.2
Hope that helps,
... Elliot
--
MS graduate student
Computational Science Program
San Diego State University
http://www.csrc.sdsu.edu/
http://www.sdsu.edu/
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