[BioC] anybody parsing BioPAX 2?

[Gilbert Feng]

Hi, Paul

I just added caBIO pathway (including NCI-Nature, Biocarta and Reactome)
support in GeneAnswers dev version several days ago. The new version
GeneAnswers have  two functions, getcaBIOPATHList and getcaBIOPATHTerms that
can parse caBIO pathways. You might have to manually install the GeneAnswers
1.5.4 if your Bioc is not 2.7.

Best

Gilbert


On 5/19/10 8:26 PM, "Paul Shannon" <pshannon at systemsbiology.org> wrote:

> I wish to parse pathways from NCI/Nature Pathway Interaction Database into
> graphNELs.  They are available as BioPAX, with an '.owl' file extension.
> 
> Has anybody already done this?  I have a start on the task using the XML
> package, but don't wish to replicate work already done.
> 
> Thanks!
> 
>  - Paul
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