[BioC] slow graph methods [was: 'slow insertions in to graphNEL object (24 hours for 16k nodes)']

[Paul Shannon]

Hi Wolfgang,

Thanks for your explanations.  I pack quite a lot of information into  
node and (especially) edge
attributes, so your first suggestion, ftM2graphNEL,  does not look so  
promising.

Your second suggestion sounds like it might work.  Is there  
documentation
somewhere that shows how to convert an environment into an S4 graph  
object?
And perhaps the complementary conversion, from a graph into an  
environment?

Cheers,

  - Paul


> 2. Alternatively, you could use an environment to store objects  
> describing
> your nodes and edges. Adding and removing things from an  
> environment is
> very efficient / cheap. Again, once you are done, you could convert  
> into the
> cleaner and more robst S4 graph object.